Not a lot overall.
Miles Morales now part of main MCU continuity.
Doom was changed for a while but looks like he may be going back to his old habits in the new series.
FF was gone for a long time and is just starting to come back.
That's really all I noticed. All the other changes in Avengers and X-men etc were more due to their own story-lines.
Still I thought the Secret Wars series itself was very well written, particularly if you are an FF fan since they and Doom were the centre of the story.
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