should i be worried installing these two? what does it mean though?
(these are captured from Pop! OS software manager)
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I think they're a move in the right direction.
Just looking at the weird scaremongering around Signal from the past few days ("a chat app stores keys as files that you can read) shows a trend that I've been seeing more the past years: people have gotten so used to the Android/iOS sandboxing system that they've either never been taught or have forgotten how normal programs work.
Flatpak and the necessary desktop portals are very much a work in progress when it comes to user friendliness, but they're what the world has been moving towards for a while now.
I don't know why a journaling app needs full system access and access to system settings, and the permission Flatseal requests is a dangerous one if you pay attention to these things. Looks like they're doing their job to me.
Xournal seems pretty trustworthy to me, so I assume it's for code simplicity (or age) or not being made with Flatpak in mind - just 'open any file/full filesystem access'' (for basic functions like opening files) and 'change system settings' for probably only a few features that change system settings.
I agree the permissions are dangerous and I commend Flatpak for incentivizing developers to use granular permissions.
As others (and you yourself have said), Flatseal's entire purpose is to edit Flatpak lermissions, so that one shouldn't be alarming.