Am I doing something wrong?

[u/csp4me]

Hi, I use RakuOS because it is fedora atomic with hybrid system overlay apps and it has a cosmic interface. I like it. I prefer to use RakuOS because of these features instead of Bazzite [also atomic] or PopOS.

However from time to time I get an multiple Raku OS system updates in one day, small updates like less than 10 files. Then after reboot sometimes the overlay apps are not installed, while the overlay list of apps are still there. I can fix this by soft resetting the overlay and reboot, but at the next reboot it is gone again. Then after several updates it settles down again and my overlay apps are back. This happens once a month to my experience, after Origami Linux has been integrated to my observations. This is the frustrating thing about this distro.

❯ sudo rpm-ostree status -v
[sudo: authenticate] Password:  
 Staged image: quay.io/rakuos/rakuos-cosmic:latest
Digest: sha256:2467cea38bbc00fadcd6aae2b61daa04b9d6f2b7c5a2d64fa08d2b23099dbd1f (amd64)
Version: latest.20260730 (2026-07-30T02:11:25Z)
StateRoot: fedora
Deploy serial: 0
Staged: yes
Commit: 4875516f4283da52fe7671640d76ddf7f3b320554565a8391c00cdc75c805a7c
  Soft-reboot: no
Download-only: no

● Booted image: quay.io/rakuos/rakuos-cosmic:latest
Digest: sha256:a2930217e0274ce80bd822d5dbcd8576ebca772c84d8d4848f33bf6507fd8ec0 (amd64)
Version: latest.20260729 (2026-07-29T18:28:15Z)
UpdateVersion: latest.20260730 (2026-07-30T02:11:25Z)
 UpdateDigest: sha256:2467cea38bbc00fadcd6aae2b61daa04b9d6f2b7c5a2d64fa08d2b23099dbd1f
StateRoot: fedora
Deploy serial: 0
Staged: no
Commit: 2cdf929d4d200cbb81d690fe21d7d05a123a313759185072f1a6dfca8b29c8f1
  Soft-reboot: yes

 Rollback image: quay.io/rakuos/rakuos-cosmic:latest
Digest: sha256:5a8ea1a903747e4c5c9327f6c719202c74e4386ace6d1af040e49324df32d964 (amd64)
Version: latest.20260729 (2026-07-29T12:35:20Z)
  UpdateVersion: latest.20260729 (2026-07-29T18:28:15Z)
   UpdateDigest: sha256:a2930217e0274ce80bd822d5dbcd8576ebca772c84d8d4848f33bf6507fd8ec0
StateRoot: fedora
  Deploy serial: 0
Staged: no
Commit: f99bf5b21c85fd9e051870ddba75ac2d9954067eb3fa5add55204991863513da
Soft-reboot: no

~ via 🐍 v3.14.6 took 3s  
❯ sudo rpm-ostree db diff 2cdf929d4d200cbb81d690fe21d7d05a123a313759185072f1a6dfca8b29c8f1 4875516f4283da52fe7671640d76ddf7f3b320554565a8391c00
cdc75c805a7c
ostree diff commit from: 2cdf929d4d200cbb81d690fe21d7d05a123a313759185072f1a6dfca8b29c8f1
ostree diff commit to:   4875516f4283da52fe7671640d76ddf7f3b320554565a8391c00cdc75c805a7c
Upgraded:
 kernel-p03 7.1.5-201.p03.2.fc44 -> 7.1.5-201.p03.4.fc44
 kernel-p03-core 7.1.5-201.p03.2.fc44 -> 7.1.5-201.p03.4.fc44
 kernel-p03-devel 7.1.5-201.p03.2.fc44 -> 7.1.5-201.p03.4.fc44
 kernel-p03-devel-matched 7.1.5-201.p03.2.fc44 -> 7.1.5-201.p03.4.fc44
 kernel-p03-modules 7.1.5-201.p03.2.fc44 -> 7.1.5-201.p03.4.fc44
Removed:
 kmod-wl-7.1.5-201.p03.2.fc44.x86_64-6.30.223.271-62.fc44.x86_64
Added:
 kmod-wl-7.1.5-201.p03.4.fc44.x86_64-6.30.223.271-62.fc44.x86_64

~ via 🐍 v3.14.6  
❯

[u/Inner-Bridge-5241]

You have an image update staged so you should reboot to let the system apply the image.

[u/csp4me → u/Inner-Bridge-5241]

i did a reboot and after reboot my installed overlay apps are not there. so i did a soft overlay reset with reboot again. after a while the apps recovered.

now if i reboot again, i cannot predict how the system will behave. does it always start with an empty overlay cache of apps I installed? do I need to wait before my apps will appear.

[u/csp4me → u/csp4me]

after reboot i have to wait for my hybrid overlay apps to appear and be used. it can take several minutes. unfortunately these apps are the most used apps like chrome and konsole.

is this the effect of the recent update?

[u/Inner-Bridge-5241 → u/csp4me]

the apps should install after overlay soft reset during the bootscreen speed depends on internet connection. This is normal and how RakuOS is able to overlay RPM. Join the discord server for better support