All PRs are rebased and merged in a linear history of merge commits that reference the PR#. If you intentionally crafted a logical series of commits, merge them as a series (ideally you've tested each commit independently), otherwise squash.
If you want more detail about the development of the PR than the merge commit, aka the 'real history', then open up the PR and browse through Updates, which include commits that were force-pushed to the branch and also fast-forward commits that were appended to the branch. You also get discussion context and intermediate build statuses etc. To represent this convention within native git, maybe tag each Update with pr/123/update-N.
The funny thing about this design is that it's actually more similar to the kernel development workflow (emailing crafted patches around until they are accepted) than BOTH of the typical hard-line stances taken by most people with a strong opinion about how to maintain git history (only merge/only rebase).