Looks like dowel pins in red circles. If so, they are probably holding some.
If I were doing this I would paint all the black pieces with rustoleum gloss black before reassembly.
Finally an Update!
Got the engine onto the stand, and removed the oil sump:
Shared album - Eric Rujiraviriyapinyo - Google Photos
pistons out:
Shared album - Eric Rujiraviriyapinyo - Google Photos
the rest of the photos:
Shared album - Eric Rujiraviriyapinyo - Google Photos
what else should i check?
is the crankshaft salvageable?
what about the badly scratched rod cap #2
My first instinct would be to replace all the bearings and the rings and slap it back together, but will the scratches on the crank and rod cap be an issue? can they smoothed out without causing other issues?
I found a shop that works on crankshafts, they are taking a look at the photos. I will check for wear on the main bearings and piston pin bushings.. Im not sure what to look for on the oil pump. (any help here?)
also where do you see the undersized inserts at hoye? oh would it be this:
Rod brg., .2 (.5 mm): Yanmar Tractor Parts
EDIT: never mind i do see the undersized bearings listed with the regular ones now.
Thanks