You were planning on using the GD-5428 VLB for the Quake w/audio tests. Are you still able to test this card? There is no issue with PCI cards and the issue with the Trio64V+ is much less prevalent than with the VLB versions of the Mach64 or 5428.
What FSB are you running?
I don't understand how you did not witness a Quake v1.06 slowdown when using exactly 64 MB and either 256K or 1024K. I witnessed this with both of my M919 boards. I tested for this several dozen times and it was always there, and on both boards. What BIOS are you using? I am using this:
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This is what I see. Sometimes, subtle like a colour swap here. Usually with the Trio64V+
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But with the GD-5428 or Mach64, I more commonly and frequently see these, but it doesn't stay like this:
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Plan your life wisely, you'll be dead before you know it.