Detect proxy settings and ports

Hello forum, I have a project to find out which servers or applications/services are going through ISA 2006 proxy. The servers comprise of WIndows 2003 and 2008 R2 boxes. I tried proxcfg.exe (pre 2008) and netsh winhttp show proxy (post 2008) but I get following
results. I know that these boxes do use proxy servers because they show up when I query ISA logs.
C:\proxycfg
Microsoft (R) WinHTTP Default Proxy Configuration Tool
Copyright (c) Microsoft Corporation. All rights reserved.
Current WinHTTP proxy settings under:
  HKEY_LOCAL_MACHINE\
    SOFTWARE\Microsoft\Windows\CurrentVersion\Internet Settings\Connections\
      WinHttpSettings :
     Direct access (no proxy server).
C:\netsh winhttp show proxy
Current WinHTTP proxy settings:
    Direct access (no proxy server).
I have also looked at registry keys HKEY_CURRENT_USER\Software\Microsoft\Windows\CurrentVersion\Internet
Settings but found nothing of relevance. Checked IE settings and found no proxy configuration. How can I check which application or service is using proxy and on which port? Thanks again.

Thanks Quan, a little background, ISA version is 2004 and the traffic logging is done on a different box with SQL 2005. Which means that all server, service/application or user generated traffic first hits ISA boxes and data is logged in SQL server. Now, I
ran a query on SQL boxes to see if there are servers or applications still accessing old ISA servers and found that many still are using that route. The query I ran is 
select clientusername,Max(logtime)
from webproxylog
where logtime > '2014-03-04'
Group by Clientusername
Outcome is a list of servers and users accessing old ISA servers, please see below
clientusername
TimeStamp
Domain\USER1
12/03/2014 9:42
Domain\USER2
10/03/2014 8:29
Domain\SERVER1$
12/03/2014 6:33
Domain\SERVER2$
7/03/2014 23:05
Domain\SERVER3$
7/03/2014 23:09
Domain\SERVER4$
7/03/2014 22:18
Domain\SERVER10$
12/03/2014 0:15
Domain\SERVER12$
6/03/2014 13:00
Domain\SERVER21$
9/03/2014 15:05
Domain\USER46$
6/03/2014 7:17
Domain\SERVER22$
5/03/2014 17:25
Domain\SERVER73$
12/03/2014 9:11
Domain\SERVER14$
5/03/2014 17:31
So I logged on to few servers to check proxy settings. The server list comprise of Windows 2003 and 2008 R2 boxes. On a handful of servers I found proxy, under IE settings but on others I didn't find any proxy settings (under IE). Then I tried proxcfg.exe (pre
2008) and netsh winhttp show proxy (post 2008) but I got following results, please see below. 
C:\proxycfg
Microsoft (R) WinHTTP Default Proxy Configuration Tool
Copyright (c) Microsoft Corporation. All rights reserved.
Current WinHTTP proxy settings under:
  HKEY_LOCAL_MACHINE\
    SOFTWARE\Microsoft\Windows\CurrentVersion\Internet Settings\Connections\
      WinHttpSettings :
     Direct access (no proxy server).
C:\netsh winhttp show proxy
Current WinHTTP proxy settings:
    Direct access (no proxy server).
I have also looked at registry keys HKEY_CURRENT_USER\Software\Microsoft\Windows\CurrentVersion\Internet Settings but found nothing of relevance. Checked IE settings and found no proxy configuration. Then why are my servers using old proxy servers?

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