I will be doing this next weekend. It will be 100% Sikaflex with no fasteners. My roll bar is the standard size. The plexiglas meets the skin at an angle along the top aft edge, meaning that the materials diverge slightly behind this and the gap for the Sikaflex widens out aft-ward if you were to look at a vertical section through the overlap. So I plan on no more than 1/16th of fillet visible at this edge and my overlap will be just over 1 1/4 inch wide so that the fillet should be well over 1/8 thick at the rear and pretty close to 1/8 on average.
While I took special measures to ensure I had a minimum of 1/8inch fillet everywhere on the main forward canopy, I think there are two reasons why the aft window is less prone to any risk of departing the airframe:
1. The plexiglas is INSIDE the skin all along the side/aft edge so there is no question of any force that will tear the joint open. I presume that forces pushing the plexiglas into the aircraft are rare enough that we don't have to worry much about them. The exception to this is the top of the roll bar, where nothing other than the Sikaflex itself mechanically restrains any force that would tear the plexiglas up and away from the joint. If the joint were to fail and the air stream were to get in there in flight, then the window would act as a scoop and would be gone pretty quickly. It obviously makes sense to have at least the minimum recommended depth of Sikaflex along there. If you are still nervous about it then maybe Sikaflex is not for you.
2. The size of the aft window is quite small, particularly fore-aft, so the potential for thermal expansion/contraction causing a shear force on the join is limited, at least relative to the forward canopy. Given that the window is mechanically restrained by the skin around the side/aft edge, I imagine any thermal expansion will mostly have the effect of pushing the side edges downward. The expansion should be cumulative, with the centre staying put and the edges, particularly in this case the side/ forward corners, moving most. For that reason, I will be ensuring that there is at least a quarter inch between these corners and the roll bar mounting angle. Otherwise, the expanding plexiglas could make contact here and push against the angle thereby transferring further expansion into an upward tearing force at the top of the roll-bar.
I am not an engineer so make up your own mind about this, but it makes sense to me.