Just avoid those servers. Save games is something TFP is planning to work on, but they are a low priority. The way they work may not even change in terms of what is saved at one time. There is so much being saved that trying to save everything at one time is likely to freeze the game each time, so you're probably going to always have the possibility of doing that. It's not really a big deal, though. In a co-op game or a solo game, the people playing can choose whether to do it or not. If those you play with do it and you don't want them to and they won't listen to you, you just play with a different group of people. If you're playing with random people, well... that's just something you have to accept when doing that... people are going to cheat and use exploits. If that's an issue to you, then you avoid playing with random people.
They may eventually fix that, but it may just not be possible. In the meantime, your choice is to play on a server that disables those things, or play on one that doesn't and accept that people may do that, or avoid servers and play with people you know, or play solo.