I've seen something on here about people using it without problems, can't remember which posts they were though. I think one was about an observation hive.
I would only use the aquarium silicone myself, if its safe for marine fish and corals it's certainly safe for bees, also it's not as "soft" when cured as some low modulus silicones.
Some silicone contains mould inhibitors that may be detrimental to the bees, and neutral cure does'nt mean it's harmless, it just means it won't affect most materials it's applied to.
Ordinary silicone continues to give off chemicals for a long time after it's cured, that's why you can't use it with self cleaning glass. If you were to put a bead of silicone on self cleaning glass it will stop the glass working for 50mm either side of the bead.
An alternative would be one of the new polymers, use it like silicone but far superior in everyway, dearer though!
Of course someone will say that they've used ordinary nuetral cure with no problems for years, they probably have, but why take the risk, use aquarium silicone and bee safe.