I guess it depends what you're actually trying to do. For me, the only reason I care is so that I don't buy a standalone book I already have as part of an omnibus.
I number them for the first book in the omnibus, and tag it "Omnibus" and note which books they are in the top of the description. I have a colouring rule that changes their row colour, which is enough to remind me that they're there.
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