Changing Timing Cover with Engine in Car
Get the rubber oil pan seal installed with the nubs/nipples (pull them with pliers to get them installed completely).
Then you have to trim the bottom cork pieces for the oil pan to timing chain cover. Overlap this one with the rubber seal and use silicone/RTV to seal them together at the joints.
Then use gaskacinch on the timing chain cover to block gasket - both sides.
Carefully pilot the timing chain cover in place, paying attention not to knock the oil pan seals out of position.
It helps to use a phillips head screwdriver in the holes to help align the cover to the block while starting the first couple of screws.
You may want to trim the nubs/nipples off the round oil pan gasket to help get the oil pan to timing cover bolts in. Or learn to fight them with a socket and ratchet.
Install the bottom cover to oil pan bolts, then the timing chain cover to block bolts and be sure to torque the bolts before installing the water pump so you can get the one behind the lower water pump outlet before installing the water pump.
Then torque all the rest of the water pump to timing chain cover bolts.
Then install damper, alternator, fan & pulley, and P/S if applicable.
Then the hoses.
Good Luck!