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Most Silicone will bond fine. You're hearing it won't because people commonly use both Acrylic and Silicone for Aquariums, but in this case due to water pressure the seal will not hold. As long as it doesn't have any significant pressure on it, a Silicone gasket would work perfectly.

Silicone is commonly used inside Acrylic Aquariums to hold interior panels. Silicone cannot safely be used to seal an Acrylic Aquarium, where you will need actual Acrylic cement. Internal use is okay.

Don't believe me? Check out this video where someone does a strength comparison test on Silicone and Acrylic. Not good enough to seal an Aquarium, but good enough for a grommet blocking only air.