Ravenlord - it looks like there are three concurrent issues impacting medals, if you'd like to update your first post with it so we can contain the topic to this productive thread. Or, I'll just put it here to summarize:
1) In regular multiplayer when the 30 second scout timer runs out, and battle timer starts, you can lose medals even if you end the battle without dropping a troop - this is a change from previous behavior. The medal loss will not appear immediately, but rather when you log out and back in. There is a workaround in that if you enter and win another multiplayer battle, you might not lose the medals, though I think Ive personally experienced the loss even after a subsequent win.
2) There is an issue summarized by Seraphine on page two of this thread, wherein if someone is attacking you and force quit/connection crash sometimes the battle log will not appear, resulting in medal changes without any sort of event appearing.
3) There is an issue where war attacks and defenses are counting for medals. The effect on medal count will not immediately appear on the medal icon in the main screen, though it will appear on alliance roster medal counts. Once you log out and back in the medal icon will also show the updated total counting war hits.
Put all three of these together and it makes a lot of sense why our alli chat, and many others, has been ablaze with people dropping 100+ medals out of no where when they've made no multiplayer attacks, been under treaty, etc.