So it looks like their is an outstanding ‘bug’ ( or rather lack of MS support on that block ). Here is the issue a user raised and a CSS fix one user has applied.
Some of the prefix CSS properties such as ms-grid aren’t recongnised by the Customizer but will ( should ) work on the front end, so those errors can be ignored.
So the logos are in line when that code isn’t present? Odd as its uses a flexbox. Can i suggest flushing and disabling autoptimize to see if there is cache problem.