Well actually both downloads (Progress Thru Processors and GridRepublic) are the same software (different versions) with different branding. They both are using the BOINC software with new skins and screensavers. Essencially you installed one version over another.
The Progress Thru Processors Facebook application links you seemlessly to the GridRepublic website and is compatible with BOINC software. GridRepublic helped create the PTP Facebook Application.
The PTP branded download is using the latest underlying software in relation to the GridRepublic branded download.
Since you have essencially created two GridRepublic accounts I do not know if it is possible to merge them. I will see what I can find out on this and post back what I find.