Hmmm...
Chris,
The way it is set up, all the silicone needs to do is cure adhered to the glass, molded around the stationary baffles and spacers as it were, and it possibly forms rib-like grips to keep the acrylic baffles in place ---even though its adhesion to acrylic is relatively weak.
There is no need for a watertight seal nor pressure resistance between the glass and the baffle plates, so I suppose it'd do.
Epoxy has one serious drawback: permanence.
If the executed design doesn't work right, or
if you decide you want to take the thing apart for a simple refit, you are SOL.
Jus'my H.O.
