Modded PS2 controller lockout?!?

[-Ace-]

OK, I have searched high and low for an answer, and will finally post and see what turns up. I have a version 3 PS2 (I beleive) with a Mesiah 2 modchip installed. Here's the strangeness- there are some games, seems mostly EA games, but not all, will boot up fine(originals or backups, doesn't matter), but the controller gets "locked" so you can't press start to play the game- the game intro will ofcourse just play over and over again. I just had NFS Underground 2 do this to me today. Goldeneye and Killswitch did this to me also. My initial guess was that there is some code on the ps2 disc that can basically see that a modchip is in my system, and "locks out" the controller making the game unplayable. Anyone ever here of this? I have tried switching controllers, plugging them in and out during bootup, unplugging them altogether, to no avail. I hope there is an answer somewhere, because this is driving me nuts. Please dont respond with "get such and such modchip instead". This has only happened on a handful of games- bitch of it is, you never know which ones will do this. Installing the modchip was absolutely no fun, although I did it successfully the first time. There were probably around 40 some wires and a number of them had to be soldered to miniscule solder points. So, bottom line, nothing is wrong with the install. Thanks