When I got the Bike Back from the Dealer...

SKX009K1 said:

I dropped the bike off for its 6,000 mile service today:

USD $249.17, with $155.00 for labor. But that's about what I expected.

However, I also noticed two other things.

First, the clutch feels completely different. The friction point is much farther out than it used to be. At first, I thought there was something wrong with the bike, because it wasn't moving as I was letting out the clutch. It's now basically as far out as it could be, which feels very unnatural. Why would that be? Did someone adjust it?

Second, the mechanic told me that they cleaned and adjusted the chain. It looks like they sprayed something on one side of the chain, but not on the rest. Whatever they did with the chain, is it supposed to be that way?

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If done at a legitimate BMW shop... the should have provided you with a detailed bill of what they 'did' to the bike.

"Why would that be? Did someone adjust it?"

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Yup... and might have done a bad job.

Most all clutch adjustments are done right out on the handlebar.
Move the protective rubber off the adjusting nuts (or screws). Pair of pliers, loosen the bigger nut (locking) next to the
clutch lever mount. Then the smaller nut is either screwed into or out of the clutch lever mount.
Into the mount = more free play. Out of the mount = less free play. Tighten the bigger nut up against
the clutch mount. (Maybe spray some lube in there.) Replace the rubber cover. Done.
Pretty sure the owners manual has some specs on the 'free play' in the clutch lever.

"Second, the mechanic told me that they cleaned and adjusted the chain.

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It looks like they sprayed something on one side of the chain, but not on the rest. Whatever they did with the chain, is it supposed to be that way?"

Chain 'wax'... applied very poorly.
Aside: Most 'O or X' ring chains don't require much lube at all.
For street use, weekly WD-40 sprayed on the chain, then the chain wiped clean with a rag or shop towel to get the grit off.
Kerosene or WD-40 mostly keeps the X or O rings 'soft' and continuing to seal the interior of the chain... (where the permanent lube is).
IMHO: Heaver or excess lube just flies off the chain and makes the bike dirty.

Based on your detailed invoice. Hopefully they changed the oil.

Does the oil filter look 'new' ? (I write the starting mileage on the oil filter with a silver 'Sharpie' pen.)
Look at the nuts on the skid plate... any evidence that a tool has touched them ?
Look at the oil in the 'view window'. Nice clear oil or is it crappy dark oil ?