Follow along with the video below to see how to install our site as a web app on your home screen.
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pay attention to the overlay at the top: in Master League, if you choose the kits first, and then go to Team Adjustment / Set Formation menu - when you get back from there, the kit selection will be reset to all "auto". So, one way to avoid this problem is to first do the roster changes, and then choose the kits. Basically, always look at the overlay at the top first, before pressing "Next Match" button.
Granted, it's not very intuitive that such reset is made, but it's not easy to change that behaviour, unfortunately.