Barangay San Rafael is accessible by land transportation from the city proper within 10-15 minutes. It has 7 puroks with the distance ranging from 100 meters to 1.3 kilometers from the Barangay Hall.
Purok San Francisco (25.61%) has the highest population (124 residents) , followed by Purok Malipayon (16.71%), Purok Bayanihan (13.44%), Purok Maharlika (12%), Purok Daisy (11.86%), Purok Bagong Lipunan (10.78%), and Purok Silangan (9.70%).
| Description | Area (Hectares) | % total Land Area |
| Total Land Area | 194 | 100% |
| Agricultural | 168.5 | 86.86% |
| Residential | 18 | 9.28% |
| School Site & Brgy. Site | 2 | 1.03% |
| Rivers/Creek | 2 | 1.03% |
| Others | 3.5 | 1.8% |