Best PFS scenarios to run as modules?

Ideally looking for ones that can be divorced from the Society (the in-world organization) pretty easily and flow from one to the next well.

Well, I imagine most of them can be separated from Pathfinder Society by simply changing the quest givers. Each scenario has a quest giver in the form of a venture-captain or faction head.

I'd recommend looking into the Blakros series of adventures such as Mists of the Mwangi, The Hellknight Feast, etc.

There are a ton of great scenarios. I really enjoyed the season four storyline vs the Lissalan cultists.

You will probably get more responses if you post directly on the PFS forum.

The problem with changing the quest giver is a lot of them are "go document this" and the only motivation is being ordered to do so/for archeology/rescue another member of the organization. The Blakros series seems like it could be made into a normal arc pretty easily, from the summaries it seems like all that needs to be done is taking out the Society middle man.

Guess I could post it over there.

I have used a LOT of PFS scenarios as adventures for my non-PFS home games. You generally have to change the start so that there is either a different quest-giver NPC, the PCs get a clue to the adventure in another way (e.g. journal entry; interrogating a bad guy), or you fit the scenario into an existing narrative so it more-or-less flows.

I usually take the outline of the adventure and the maps, and completely change the backstory to suit my narrative needs.

Just avoid the scenarios that are heavy on that PFS season's meta-plot. (e.g. I was running some homebrew stuff set in Kaer Maga, and bought the scenarios City of Strangers: Parts 1 and 2, only to find that they made very little sense outside of the Season 3 meta-plot about the Shadow Lodge. Aside from one encounter on the Halflight Path, there was scant little I could use in those adventures.