I have had a problem with Aptana in the past and also with Coldfusion Builder now (it appears to use Aptana used under the hood). The problem is if Eclipse/Computer freezes up and you have to restart the computer with Eclipse still open. This process seems to corrupt the workspace and you tend to lose all your settings (incl FTP/SFTP settings). So here is how you back them up.
1. Goto 'File' then 'Export'
2. Select 'Coldfusion' then select 'Syncing Settings'
3. Name the file and save somewhere
these can be imported in the same way. Hope this saves some time for people.