Yeah looks like he over-corrected a bit. That's ok though, being too rich is much safer than being too lean. I'm sure you'll get it all straightened out with him, you'll probably just have to rinse/repeat with the logging/updating process until it gets dialed in.
Originally you said traction control on/off, now you're talking about having OD on/off? Which one was it? The bog can be a lot of things, not enough spark, knock sensors kicking in and retarding things, MAF transfer still being off so extreme lean/richness in that area, etc. You'll have to work with your tuner and describe the problem to him and ask him what he wants you to log.
Does it sound like a clunk? A little noise is normal but a clunk is usually bad. Again, could need a fluid change or it might be wearing out from hard driving and worn out fluid. Mine clunks, I haven't bothered doing anything about it though cause I don't feel like fixing it when I plan on putting a new one in this winter. In a couple months it's no longer my daily driver, so if it craps out before then I won't be heartbroken.
The bog happened in 2 cases, when OD off and OD on
I tried again and then it didnt occur with OD ON. (i will keep an eye on this)
Yes, its a 100 % clunk sound.