Hi,
I took off the perspex top of my water tank over the winter as there was discolouration of an arc of the marine ply, presumably from water getting between the ply and the perspex. Also took the chance to remove the little black "floaters" that seem to have accumulated in the bottom of the tank and let it dry out completely. There did not seem to be obvious sealant as such between ply and perspex, so I just re-varnished and screwed back on the perspex. Having now seen Peter's reply, I may have to revisit the job to prevent prevent further water staining.
Did you try the sealant suggested?
Bob S