No, the mod I did was Ben Heck's composite output mod. Just to make things simpler I'll put all the symptoms in one place:
1. trigger buttons don't work from either port. Tried two sticks w/ same results.
2. B&W picture is none existant. I flip the switch to B&W and the screen turns completely black.
3. While in color mode, the colors are really messed up. I can get blue red green and black. I have yet to seen any lighter colors, i.e. white, or lighter variations of blue or green. Color is affected by the pot, but is never even close to the correct colors.
I've never worked on a Atari, and I'm quite the novice when it comes to electronics. I've fiddled around with it as a hobby. I am sure I had the mod hooked up correctly, though. I believe I may have discharged a capacitor on the right side of the board opposite the RF circuit. about midway between the top and bottom of the board. I'm not sure though. I didn't smell any ozone, and nothing is visibly fried.
P.S. as I understand it, you can't chop the atari Jr into the 4 inch square to do the portable version. At least, I think that's what Ben wrote. right or wrong??