You could always place a "Runs best on Firefox" icon on the portal. (Hey, I 
have to constantly curse narrow-minded web site designers who think that 
everyone uses IE and who therefore don't even try to make their site usable 
with Firefox - it's about time there was some payback.)

But more seriously, here are some of the things I would try in this situation.

1) Run a proxy server and route every request through that proxy server. Both 
JMeter and Grinder come with proxy servers. The nice thing is that the proxy 
servers capture all of the web requests, mainly so that you can replay it. But 
those requests include timings that can tell you what the delay was between the 
requests. (I think the timings are on by default in Grinder, but have to be 
selected in JMeter.). Once the proxy is set up, access the portal with Firefox, 
and then again with IE. Compare the timings as captured by the proxy. That 
might give you some idea of where to start looking.

2) Compare the html source of the final page as grabbed by IE and Firefox. This 
might also give some hints as to what is different.

3) Use system tools to monitor CPU usage and network usage. If IE shows higher 
CPU usage that Firefox, perhaps some of the JavaScript is giving IE problems. 
If IE shows greater network usage, then perhaps it is not caching something 
that it could (item #1 could point that out).

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