All appears to work but MailScanner is NOT there

[Industry Standard Computers]

Thanks to all up front. I am fairly new at the world of Linux email servers.

I had a working MS with Postfix & Clamav on CentOS 4 / Redhat EL 4 & 
SpamAssassin 3.0.4. I upgraded to the newest MS version today. Mail 
comes and goes but no "header" info associated with MS and no "clean 
message" footer on the emails.  After fixing some minor issues in the 
logs...

I have tons of these in /var/log/messages:
Jul  8 03:24:09 butch root: MailScanner setting GID to postfix (89)
Jul  8 03:24:09 butch root: MailScanner setting UID to postfix (89)
Jul  8 03:24:10 butch MailScanner:  succeeded
Jul  8 03:24:48 butch MailScanner: MailScanner -15 succeeded
Jul  8 03:24:48 butch MailScanner:  succeeded

I have tons of these in /var/log/maillog:
Jul  8 03:27:44 butch MailScanner[11979]: MailScanner E-Mail Virus 
Scanner version 4.54.6 starting...
Jul  8 03:27:44 butch MailScanner[11979]: Read 719 hostnames from the 
phishing whitelist
Jul  8 03:27:45 butch MailScanner[11979]: Using SpamAssassin results cache
Jul  8 03:27:45 butch MailScanner[11979]: Connected to SpamAssassin 
cache database
Jul  8 03:27:45 butch MailScanner[11979]: Enabling SpamAssassin 
auto-whitelist functionality...
Jul  8 03:27:47 butch MailScanner[11979]: ClamAV scanner using unrar 
command /usr/bin/unrar
Jul  8 03:27:47 butch MailScanner[11979]: Using locktype = flock

========  /etc/MailScanner/MailScanner.conf  =====
%org-name% = xxx
%org-long-name% = xxxxxxxxxx
%web-site% = www.xxxxxxxxxxxxxxx
%etc-dir% = /etc/MailScanner
%report-dir% = /etc/MailScanner/reports/en
%rules-dir% = /etc/MailScanner/rules
%mcp-dir% = /etc/MailScanner/mcp
Max Children = 5
Run As User = postfix
Run As Group = postfix
Queue Scan Interval = 30
Incoming Queue Dir = /var/spool/mqueue.in
Outgoing Queue Dir = /var/spool/mqueue
Incoming Work Dir = /var/spool/MailScanner/incoming
Quarantine Dir = /var/spool/MailScanner/quarantine
PID file = /var/run/MailScanner.pid
Restart Every = 14400
MTA = postfix
Incoming Work User =
Incoming Work Group =
Incoming Work Permissions = 0600
Quarantine User =
Quarantine Group =
Quarantine Permissions = 0600
Max Unscanned Bytes Per Scan = 100m
Max Unsafe Bytes Per Scan = 50m
Max Unscanned Messages Per Scan = 30
Max Unsafe Messages Per Scan = 30
Max Normal Queue Size = 800
Scan Messages = yes
Reject Message = no
Maximum Attachments Per Message = 200
Expand TNEF = yes
Use TNEF Contents = replace
Deliver Unparsable TNEF = no
TNEF Expander = /usr/bin/tnef --maxsize=100000000
TNEF Timeout = 120
File Command = /usr/bin/file
File Timeout = 20
Gunzip Command = /bin/gunzip
Gunzip Timeout = 50
Unrar Command = /usr/bin/unrar
Unrar Timeout = 50
Find UU-Encoded Files = no
Maximum Message Size = %rules-dir%/max.message.size.rules
Maximum Attachment Size = -1
Minimum Attachment Size = -1
Maximum Archive Depth = 2
Find Archives By Content = yes
Virus Scanning = yes
Virus Scanners = clamav
Virus Scanner Timeout = 300
Deliver Disinfected Files = no
Silent Viruses = HTML-IFrame All-Viruses
Still Deliver Silent Viruses = no
Non-Forging Viruses = Joke/ OF97/ WM97/ W97M/ eicar
Block Encrypted Messages = no
Block Unencrypted Messages = no
Allow Password-Protected Archives = no
Allowed Sophos Error Messages =
Monitors for ClamAV Updates = /usr/local/share/clamav/*.cvd
ClamAVmodule Maximum Recursion Level = 8
ClamAVmodule Maximum Files = 1000
ClamAVmodule Maximum File Size = 10000000 # (10 Mbytes)
ClamAVmodule Maximum Compression Ratio = 250
Dangerous Content Scanning = yes
Allow Partial Messages = no
Allow External Message Bodies = no
Find Phishing Fraud = yes
Also Find Numeric Phishing = yes
Use Stricter Phishing Net = yes
Highlight Phishing Fraud = yes
Phishing Safe Sites File = %etc-dir%/phishing.safe.sites.conf
Country Sub-Domains List = %etc-dir%/country.domains.conf
Allow IFrame Tags = disarm
Allow Form Tags = disarm
Allow Script Tags = disarm
Allow WebBugs = disarm
Ignored Web Bug Filenames =
Web Bug Replacement = 
http://www.sng.ecs.soton.ac.uk/mailscanner/images/1x1spacer.gif
Allow Object Codebase Tags = disarm
Convert Dangerous HTML To Text = no
Convert HTML To Text = no
Allow Filenames =
Deny Filenames =
Filename Rules = %etc-dir%/filename.rules.conf
Allow Filetypes =
Deny Filetypes =
Filetype Rules = %etc-dir%/filetype.rules.conf
Quarantine Infections = yes
Quarantine Silent Viruses = no
Quarantine Modified Body = no
Quarantine Whole Message = no
Quarantine Whole Messages As Queue Files = no
Keep Spam And MCP Archive Clean = no
Language Strings = %report-dir%/languages.conf
Rejection Report = %report-dir%/rejection.report.txt
Deleted Bad Content Message Report  = 
%report-dir%/deleted.content.message.txt
Deleted Bad Filename Message Report = 
%report-dir%/deleted.filename.message.txt
Deleted Virus Message Report        = %report-dir%/deleted.virus.message.txt
Stored Bad Content Message Report  = %report-dir%/stored.content.message.txt
Stored Bad Filename Message Report = 
%report-dir%/stored.filename.message.txt
Stored Virus Message Report        = %report-dir%/stored.virus.message.txt
Disinfected Report = %report-dir%/disinfected.report.txt
Inline HTML Signature = %report-dir%/inline.sig.html
Inline Text Signature = %report-dir%/inline.sig.txt
Inline HTML Warning = %report-dir%/inline.warning.html
Inline Text Warning = %report-dir%/inline.warning.txt
Sender Content Report        = %report-dir%/sender.content.report.txt
Sender Error Report        = %report-dir%/sender.error.report.txt
Sender Bad Filename Report = %report-dir%/sender.filename.report.txt
Sender Virus Report        = %report-dir%/sender.virus.report.txt
Hide Incoming Work Dir = yes
Include Scanner Name In Reports = yes
Mail Header = X-%org-name%-MailScanner:
Spam Header = X-%org-name%-MailScanner-SpamCheck:
Spam Score Header = X-%org-name%-MailScanner-SpamScore:
Information Header = X-%org-name%-MailScanner-Information:
Add Envelope From Header = yes
Add Envelope To Header = no
Envelope From Header = X-%org-name%-MailScanner-From:
Envelope To Header = X-%org-name%-MailScanner-To:
Spam Score Character = s
SpamScore Number Instead Of Stars = no
Minimum Stars If On Spam List = 0
Clean Header Value       = Found to be clean
Infected Header Value    = Found to be infected
Disinfected Header Value = Disinfected
Information Header Value = Please contact the ISP for more information
Detailed Spam Report = yes
Include Scores In SpamAssassin Report = yes
Always Include SpamAssassin Report = no
Multiple Headers = append
Hostname = the %org-name% ($HOSTNAME) MailScanner
Sign Messages Already Processed = no
Sign Clean Messages = yes
Mark Infected Messages = yes
Mark Unscanned Messages = yes
Unscanned Header Value = Not scanned: please contact your Internet 
E-Mail Service Provider for details
Remove These Headers = X-Mozilla-Status: X-Mozilla-Status2:
Deliver Cleaned Messages = yes
Notify Senders = yes
Notify Senders Of Viruses = no
Notify Senders Of Blocked Filenames Or Filetypes = yes
Notify Senders Of Other Blocked Content = yes
Never Notify Senders Of Precedence = list bulk
Scanned Modify Subject = no # end
Scanned Subject Text = {Scanned}
Virus Modify Subject = yes
Virus Subject Text = {Virus?}
Filename Modify Subject = yes
Filename Subject Text = {Filename?}
Content Modify Subject = yes
Content Subject Text = {Dangerous Content?}
Disarmed Modify Subject = yes
Disarmed Subject Text = {Disarmed}
Phishing Modify Subject = no
Phishing Subject Text = {Fraud?}
Spam Modify Subject = yes
Spam Subject Text = {Spam?}
High Scoring Spam Modify Subject = yes
High Scoring Spam Subject Text = {Spam?}
Warning Is Attachment = yes
Attachment Warning Filename = %org-name%-Attachment-Warning.txt
Attachment Encoding Charset = ISO-8859-1
Archive Mail =
Send Notices = yes
Notices Include Full Headers = yes
Hide Incoming Work Dir in Notices = no
Notice Signature = -- \nMailScanner\nEmail Virus 
Scanner\nwww.mailscanner.info
Notices From = MailScanner
Notices To = postmaster
Local Postmaster = postmaster
Spam List Definitions = %etc-dir%/spam.lists.conf
Virus Scanner Definitions = %etc-dir%/virus.scanners.conf
Spam Checks = yes
Spam List = # ORDB-RBL SBL+XBL # You can un-comment this to enable them
Spam Domain List =
Spam Lists To Be Spam = 1
Spam Lists To Reach High Score = 3
Spam List Timeout = 10
Max Spam List Timeouts = 7
Spam List Timeouts History = 10
Is Definitely Not Spam = %rules-dir%/spam.whitelist.rules
Is Definitely Spam = no
Definite Spam Is High Scoring = no
Ignore Spam Whitelist If Recipients Exceed = 20
Use SpamAssassin = yes
Max SpamAssassin Size = 30k
Required SpamAssassin Score = 6
High SpamAssassin Score = 10
SpamAssassin Auto Whitelist = yes
SpamAssassin Timeout = 75
Max SpamAssassin Timeouts = 10
SpamAssassin Timeouts History = 30
Check SpamAssassin If On Spam List = yes
Spam Score = yes
Cache SpamAssassin Results = yes
SpamAssassin Cache Database File = 
/var/spool/MailScanner/incoming/SpamAssassin.cache.db
Rebuild Bayes Every = 0
Wait During Bayes Rebuild = no
Use Custom Spam Scanner = no
Max Custom Spam Scanner Size = 20k
Custom Spam Scanner Timeout = 20
Max Custom Spam Scanner Timeouts = 10
Custom Spam Scanner Timeout History = 20
Spam Actions = deliver header "X-Spam-Status: Yes"
High Scoring Spam Actions = deliver header "X-Spam-Status: Yes"
Non Spam Actions = deliver header "X-Spam-Status: No"
Sender Spam Report         = %report-dir%/sender.spam.report.txt
Sender Spam List Report    = %report-dir%/sender.spam.rbl.report.txt
Sender SpamAssassin Report = %report-dir%/sender.spam.sa.report.txt
Inline Spam Warning = %report-dir%/inline.spam.warning.txt
Recipient Spam Report = %report-dir%/recipient.spam.report.txt
Enable Spam Bounce = %rules-dir%/bounce.rules
Bounce Spam As Attachment = no
Syslog Facility = mail
Log Speed = no
Log Spam = no
Log Non Spam = no
Log Permitted Filenames = no
Log Permitted Filetypes = no
Log Silent Viruses = no
Log Dangerous HTML Tags = no
SpamAssassin User State Dir = /var/spool/MailScanner/spamassassin
SpamAssassin Install Prefix =
SpamAssassin Site Rules Dir = /etc/mail/spamassassin
SpamAssassin Local Rules Dir =
SpamAssassin Local State Dir = # /var/lib
SpamAssassin Default Rules Dir =
MCP Checks = no
First Check = mcp
MCP Required SpamAssassin Score = 1
MCP High SpamAssassin Score = 10
MCP Error Score = 1
MCP Header = X-%org-name%-MailScanner-MCPCheck:
Non MCP Actions = deliver
MCP Actions = deliver
High Scoring MCP Actions = deliver
Bounce MCP As Attachment = no
MCP Modify Subject = yes
MCP Subject Text = {MCP?}
High Scoring MCP Modify Subject = yes
High Scoring MCP Subject Text = {MCP?}
Is Definitely MCP = no
Is Definitely Not MCP = no
Definite MCP Is High Scoring = no
Always Include MCP Report = no
Detailed MCP Report = yes
Include Scores In MCP Report = no
Log MCP = no
MCP Max SpamAssassin Timeouts = 20
MCP Max SpamAssassin Size = 100k
MCP SpamAssassin Timeout = 10
MCP SpamAssassin Prefs File = %mcp-dir%/mcp.spam.assassin.prefs.conf
MCP SpamAssassin User State Dir =
MCP SpamAssassin Local Rules Dir = %mcp-dir%
MCP SpamAssassin Default Rules Dir = %mcp-dir%
MCP SpamAssassin Install Prefix = %mcp-dir%
Recipient MCP Report = %report-dir%/recipient.mcp.report.txt
Sender MCP Report = %report-dir%/sender.mcp.report.txt
Use Default Rules With Multiple Recipients = no
Spam Score Number Format = %d
MailScanner Version Number = 4.54.6
SpamAssassin Cache Timings = 1800,300,10800,172800,600
Debug = no
Debug SpamAssassin = no
Run In Foreground = no
Always Looked Up Last = no
Always Looked Up Last After Batch = no
Deliver In Background = yes
Delivery Method = batch
Split Exim Spool = no
Lockfile Dir = /tmp
Custom Functions Dir = /usr/lib/MailScanner/MailScanner/CustomFunctions
Lock Type =
Minimum Code Status = supported

===================== /etc/postfix/main.cf  ===============
# MailScanner Addition:
header_checks = regexp:/etc/postfix/header_checks

etc.