Server mod list and Single player mod list are in two different places.
Mods for servers are in Conan Exiles / ConanSandbox / and called “servermodlist.txt”
Single player is in Conan Exiles / ConanSandbox / Mods / and called “modlist.txt”
Make sure the mods listed in the “modlist.txt” file in the “mods” folder matches the server mods. and you should be good.