OS X Mavericks :: Macbook Pro Apps Not Responding

I have a late 2010 Macbook Pro. I do a lot of Audio Production and Post Production work on my MBP. I have owned Macs for years and am almost always able to use, update, upgrade, install, uninstall, reconfigure, test, diagnose, and fix them on my own UNTIL recently. About a year ago I bought an SSD from OWS and a Optical Bay HD Kit for installing a 2nd drive. I removed my Optical and Installed a New 1GB SATA Hard Drive using the kit in that bay. I have no problems with that Drive that I'm aware of. I removed my old 500 GB Hitachi SATA and replaced it with a New OWS Mercury Extreme SSD. I have no problems with that drive either, that I am able to find through extensive testing. I upgraded the RAM to the full 8 GB. The factory bracket that holds the RAM in place doesn't work well (at least not anymore, if ever they did) as the tabs don't hold the ram in tight. I wedged tiny bits of cardboard in to hold it tight, it seems to do the trick. I did a clean install, not from a backup. Upon the hardware upgrades and clean install the MBP became much faster. It was very responsive and seems to really work nicely. I began installing my industry third party applications such as Logic Pro, Ableton, NI Maschine, Traktor, etc.

Everything worked great except that Ableton Live 9 then started not launching the GUI upon initialization occasionally. Then it got so bad it was inhibiting my workflow. I did a clean install again. No luck. Then over the period of the next few months the MBP began lagging sometimes on initialization of apps, and just acting a bit quirky but just occasionally while mostly working well. Then other apps began to follow suit and would just stall with the 'application not responding' in the dock icon. This would all happen randomly. I then noticed in the morning upon first opening and powering on, the apps would open. But they would not open more than a few times in succession. So about 3 weeks ago I did another clean install, upgraded to Mavericks upon making sure all the apps are compatible with the platform.

I then updated the OWS SSD HD with new firmware, I updated all the apps on my computer. Then I repaired permissions many many times,  and repaired all the drives from the Disk Utility. Upon no change in the MBP behavior I ran the hardware testing from the install disk with no bad results. So then I ran it in loop mode for 18 hours. It shows all hardware is working properly. I reset the PRAM and the SMC. I ran terminal command tests, I ran the console. I booted from another MBP and ran the Disk repair from it with nothing showing as bad. I have spent hours and hours on forums with no luck. I consulted an IT who works for NBC and he was stumped. I finally took it in to a Genius Bar week before last where they proceeded to do a lot of what I had done with the addition of running their in store repair software which I didn't have. They kept it and ran tests in the back in loop mode for a few days. They then called me and said it was ready for pickup and that there was nothing wrong with it.

MBP Late 2010 2.8 GHz Intel Core i7

8 GB 1067 MHz DDR3

1 GB SSD, 500 GB SATA

Info:
MacBook Pro, OS X Mavericks (10.9.4)