I do that and then sync that folder with another computer using SyncThing.
AFAIK SyncThing only monitors for changes between files with matching names, and Signal stores each backup with a separate (timestamped) filename. Are you storing every day's backup individually, or do you have some tool for deduplicating?
That also means that Syncthing can't do better than sending the full backup. But if you're syncing via wifi (e.g. at home) it's not really a problem anyway.
This isn't an encryption problem; each device can only have one instance of Signal installed, and the latest backup (assuming it has terminated successfully) is a superset of the previous ones (aside from any messages that have dropped from retention, which you presumably don't want to be preserving, by definition).
"Deduplicate" in this context means ensuring that you only have N backups in your remote storage, rather than cumulatively storing every day.