The wing window/rubber job sucks.
You will need the correct stainless steel rivets: four 1/8" and one 3/8" per wing plus the proper tool. Or, a pop rivet gun and those same-size pop-rivets.
Yes, you need to dis-mantle just about every thing on the door as mentioned...and remove the upper-most guide fuzzy to get the wing window assembly out of the door.
Once out, you will need to drill out the one 3/8" rivet that holds the pivot/hinge together, then remove the the 7/16" nuts and washer(s) assembly on the lower portion then remove galss. At this point you can to drill out the four 1/8" rivets along the back edge of the frame.
Peel out old rubber and firmly stuff the new rubber in it's palce. Now pry something like a small drill bit in to one of the four holes along rear edge to line-up the other three. Start popping the 1/8" rivets. Assemble glass back into frame, do-up the nuts and pop the final rivet. Put the wing back in the door.
Hope that helps.
Shayne.