I had the same annoyance of lots of files in my home directory. This is what I did.
- Create a directory
~/+Files. - Move all of my(not the annoying config files) files to this new directory.
- Configure interactive shell, and dolphin to start in this new directory.
- Create a directory for config files
~/+Files/config - Move config files to this new directory, and sym-link to them.
Now bymy home directory contains only sym-links and +Files directory.
From time-to-time I then inspect my home directory for cruft that has turned up. And decide what to do with it: move to config, remove, …