Sync Toy vs SkyDrive

I have a question regarding sync files between my desktop and notebook, and using other devices. I have been using SyncToy for quite a while, with fairly good results. Sometimes though I seem to get edits (deletions and overwrites) that I really do not want. Is there a better solution for syncing large amounts of files? I am starting to try out using SkyDrive, but I’m not totally comfortable...