yeah I'll +1 that heat check, and power's not a bad shout either.
i'm a paranoid to run hi-res/scandoubled screenmodes on the IndieAGA given Lisa's propensity to heat up.
in the A500/A600's I've not had any problems to that degree, but it does sound like a data corruption issue. either flackey data getting to the IndieECS or denise getting toasty.
I do notice a scan line ... thing... on higher res modes with the Indie. and I think its down to denise not able to shift data fast enough rather than anything wrong with the indie.
My Bvision3D card taught me to check everything, as I was getting artifacts until I put a heat sink on the PCI adapter chip! and found that by an accidental touch and nearly burning myself.
hope you find a solution!