Thank you Hayato, that's what I believe the problem is as well. Do you think just downloading the latest firmware after booting in OFW would solve the issue? Is there a way to upgrade firmware without booting into Atmosphere? I don't want to mess this situation up further than I already have.
I manually downgraded my Switch using this guide https://switch.homebrew.guide/usingcfw/manualchoiupgrade.html,
because my friend accidentally updated a downloaded NSP and made CFW unusable. The process went well, and I successfully downgraded to 4.0.1. I can inject Hekate fine, and boot into...