Every update overwrites system.
However the development of /e/ does seem to cause frequent unhelpful material in cache.
When you identify problems like
it it often helpful to Clear cache for each identified. Often another clue is apps (maybe system apps) which seem unusually high in battery usage figures.
Settings > Apps > show all > top right 3 dot menu > Show system > Search …
(system will show as Lineage system or so.)