Ford Super Duty (1999-2016) :: 2001 F250 - Lifted One Side Of 5.4 Motor Now Studs Don't Line Up

So...I'm dealing with a leaking passenger side exhaust manifold on my 2001 F250 SD. (Extended cab, long bed, 5.4 XLT.) Been slowly making progress on getting the manifold bolts off (the ones that weren't broken already at least.) Got all the top row off and the flange free yesterday, today was on to the bottom row.

I undid the 2 bolts on the PS motor mount studs and carefully jacked up the motor to lift that side a bit. I couldn't figure out anywhere else so I put a piece of 2x4 under the oil pan and used that point to lift up with the truck's bottle jack.

Worked well enough, but when I decided to call it a night I lowered it back down. Looking at one of the studs that I could watch as I moved it, the mount came to rest about an inch and a half away from where it started. (Higher up on the slant.)

How much does this matter? If the position is critical, how can I go about getting it back to the starting point?

I have a feeling the fact that I'm working in my uneven, unloved driveway had a lot to do with this. The passenger side is raised slightly and on a jack stand. Just enough to get the wheel on and off for access through the well.

On a positive note, I only have one more bolt to remove to free the manifold, the one right above the mount. I couldn't get anywhere with my nut extractors so I finally started grinding away at the nut with my Dremel. Should be able to get the old manifold off tomorrow and start working to get the studs out.

My Irwin Bolt Grips worked a treat combined with a MAP Pro torch on the others, but not so much on the hardest to reach one. Go figure. For starters there just isn't enough room to get a good solid hammer blow on it to seat it, and to make things way more complicated for some reason that particular location had more exposed stud length, so I couldn't get it all the way on to the nut and still get a ratchet wrench into the other end too.