Your picture in Reply #6 has the canopy in the right position. So here is my method to finish it off. Others will differ.
#1 Mask off the bottom on the outside to where the final finish line will be. I use a thick blue masking tape for this. Once you have the line on the canopy mask the rest of it with something that comes off easily. Blue masking is OK. This will be on the canopy until the final finish is applied .
#2 The side blocks will need to be carved so go ahead and glue them in. They should be flush with the fuselage sides (not the indented part) and in the front to give you a lip after sanding.
#3 Sand the Outside to make it a smooth curve enough to let you put the canopy in place. Mark the edge of the canopy on the fuselage. I use a thin point felt tip pen since it
leaves a mark that resists sanding.
#4 Cut the side blocks back 1/16" for anything above the line. The canopy should now seat all the way around. Now this part is personal preference. I make a military
type canopy so I build a wide lip on the inside. Yours should probably be narrow so carve the inside to where you have a small lip, say 1/16" on the sides.
#5 Now everything above the lines will visible through the canopy and needs to be finished (especially the back). The canopy is the last thing you want to glue on before
filler.
#6 Glue it in with canopy glue and add a light filler all around. Sand it down to the tape but do not sand through the tape. Leave the tape on till the plane is finished, clear
and all.
#7 Post pictures and reap the good comments. You have just completed what will probably be the only see-through canopy at most contests today!
A note for the future. I build a canopy "block" that slips out of the main fuselage so that I can work on it separately.
Ken