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AGP or PCI-e?
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Havok:
PCI-e is the best choice for a computer monitor hookup only. I'm sure Andy will eventually update the ArcadeVGA anyways - it's gone through a couple revisions already.
ZeroPoint:
Choose PCI-EXPRESS, even if you later on change to a real Arcade monitor.

You won
vader:
I would email Andy first and see if you can get a ETA on his update to make sure you don't make a uninformed decision.  I would hate to see you buy a PCI-E board with no AGP slot only to not have a AVGA available for a year or so.  Of course if you never plan to buy a monitor such as the WG D9200 and/or arcade monitor and just plan on using the PC monitor, you won't have any worries as Havok said above.

Tim
MikeQ:
Technically PCI-E should be better.  When applications write data directly to a video card with going through an API like D3D, DirectX or OpenGL, they get a pointer directly to video memory and write into it.  Video memory is very fast.  The bus however isn't as fast.  When CPU access of the frame buffer occurs, it goes through a mechanism called "fast writes".   This means that the writes occur at the speed of the AGP/PCI-e bus.  PCI-e is faster so theoretically, games that directly access the frame buffer would perform better on a PCI-e configuration.
pointdablame:
If you won't be running newer games on this system EVER.. and you know that it'll only be for MAME, go with AGP.  You can then use an AVGA if you ever wanted to, and you will never really need a brand new video card for MAME, even if you want to try to run newer CHD games.  AGP will still be around for a number of years, there will be cards, and I'm betting there will also be AVGA cards.

PCI-E is the new format, get it if you want to futureproof your system a little bit, or if you're fairly certain that you'll be upgrading this PC as opposed to just getting a newer one down the line.

MikeQ's explanation is true, but is mostly irrelevant for a MAME PC.  You won't see any performance gains on a PCI-E card over an AGP card using MAME.
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