Theories and Conspiracies about Relationship Between the Museum Proper and the Mess:
Compare a diagram of warp alignments of the Mess to a diagram of the Museum, it doesn't take too grand a stretch to notice the similarities to the Mess that the Museum has:
There are whisperings that the Museum is not merely derivitive of the Mess, but was an older, stricter, and less-fertile architecture prefering much more deliberate creation than the Mess and its carefree productions.
Was the Museum the failed prototype for the Mess, unable to nuture actual civilizations within its narrow halls?
Is it the 'Jewelbox' of Puzzlebox, a container for keeping the best elements produced by the Mess from being lost?
Could they be lovers, the Museum being the male component to the female Mess, colaborating together in the seeming parthenogenesies in the Mess?
(Or maybe the genders are reversed: Distantly, Kasuri says, "I'd think the way I did because the Mess tends to be, well, a mess. Crap strewn everywhere, no particular order to any of it. Carefree and willy-nilly, as it were. Very stereotypical male. :> The Museum is quieter, calmer, and reserved. More elegant. And holds some of the best of PB, caring and naturing like a mother.") (to you)
Or is it convergent cosmology, potentially even a rival biding its time?
Alternately, the Museum could be the steamy lovechild of PB and some other equally as bizarre universe. Say, one made up of ...[Jelly].