I'm using Vimwiki for now. I seem to be happiest with notes in vim, but (since I use it in a terminal) I'd still like a way for that particular vim (in terminal) window to stand out. Any ideas? Maybe using an alternative terminal emulator for that one?
For a while I used vimwiki in a drop-down term: guake and yakuake have this as a primary feature, good for gnome/KDE, but if you're using a tiling WM you can use termdrop on most terminal emulators.