You do not need to disable mods on your side, the game will keep catalogued mods for any and all multiplayer servers you join in their own folders separate from your personal, local mods.
Any time you join a server, you will be prompted to download the mods for that server and they will automatically be installed in their own partition within the modding folders of Vintage Story! Makes things very easy and allows mostly-painless server hopping.
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Mushroomancer's post in Question about joining multiplayer and mods was marked as the answer