Timing issue when recording audio from MIDI tracks

[Gothboy]

When recording audi from midi tracks I've been encountering a timing problem in that the recorded audio appears on the timeline before the actual measure of the midi track, sort of like reverse latency. So unlike midi latency, where the recorded audio is lagged behind in timing, in this case the recorded audio appears a little bit BEFORE the correct measure. In this case it's a drum loop MIDI triggering a Yamaha A3000 hardware sampler. I then had to nudge it over and place it in the correct measure after I edited it so that it aligned with the click. Do I have to do this with every track????? There's no way to adjust for positive offset in the MIDI preferences....only negative offset...so it doesn't seem to be a MIDI latency problem. I thought it might have something to do with the way the program is using the CPU. I've got the CPU usage at 65%. I'm not using any audio interface.....just the direct 1/8" audio in on the computer. I've been through the manual and aside from audio latency as a result of digidesign hardware when monitoring audio I can't find anything that relates to this issue. There must be something I'm missing. MIDI cables seem to be fine, audio cables too. How can I get my tracks synced if I've got this audio Lag?
I'm using PT 5.0 with a 233 mhz. IMac G3 bondi with 380 mgs. RAM and bear in min this was the first audio track I tried to record in the song. I also posted in the PT Free forum but I'm posting here as well because that forum is usually pretty dead. Any help or advice would be great.