Sorry I think my last past was a little run together. Bullet points are as follows:
1. Custom build used to be my workhorse till I got my Mac, not it just plays movies.
2. About 3 weeks ago the custom build started BSODing at least once every day or two.
3. Last week I made the custom build start handling Handbtrake work (I have always used HandbrakeCLI, batch scripts are better for handling large amounts of videos).
4. Ever since I have had it doing that, it hasn't BSOD'ed even once.
It's strange because I couldn't figure out what was causing the BSOD, and now that I'm making that quad core CPU ride over 90% it has not happened again.
BTW I hate stuff like this. It doesn't make since, and it's impossible to diagnose.