I have just done this very job, with a new vertical rubber seal on both doors and new V rubbers on 1 door.
You need to hold the opening window aluminium frame in place with the 3 pop rivets, so the ally frame is a tight fit to give enough room for the triangular frame to fit.
Fit the 3 rubbers on the glass, then carefully put the frame into the door easing the rubbers inside the door over the fibreglass with a flat blade screwdriver.
When the two thick rubbers are in place externally and more important internally, you can ease the vertical rubber part into place, using a flat blade screwdriver to get the rubber into position. It takes a while, but when you have eased the rubber over the glass properly, the rubber should fit up against the vertical aluminium frame. It takes about 3 up and downs to get the rubber properly in place.
You need to be in the right mood to do this. A lot of patience and a steady hand is essential.
If your car has just been resprayed, the triangular frame might not fit in the sharp end of the fibreglass door. I had to use a file very carefully to remove paint to get the V of the frame to fit in the V of the painted fibreglass. When the frame fits properly and fully flat in the fibreglass, you can start to put the rubbers in.
Banks new rubbers in the V are too big and need trimming. I used big wire cutters to trim the rubber. Check that the V rubbers are actually seating properly in the V ally frame. Mine were about 3mm too high, so no chance of getting the glass in. The glass fitted properly in the rubber, but the rubber did not fit in the ally V frame properly.
P.S. So far 4376R has taken me 13 weeks to build from a bare shell, and I am about to get it moving on its own power. I just need oil pressure and some super-unleaded fuel. E10 is the normal now at the pumps, and I dare not risk using that.