| Madarsa Ahle Sunnat Faije Mardan Shah Ganga ki Basti Sam | SAM | Primary | 50 | 50.0:1 |
| Mahatma Gandhi Govt. School Rajmethai | BHANIYANA | Pr. with Up.Pr. Sec. and H.Sec. | 50 | 25.0:1 |
| UPS Bharat Ashram Vidhyalya Myajlar | SAM | Primary with Upper Primary | 50 | 7.1:1 |
| UPS New Luck School Bhaniyana | BHANIYANA | Primary with Upper Primary | 50 | 8.3:1 |
| Govt. PS_ Beekeri | JAISALMER | Primary | 49 | 24.5:1 |
| Govt. Ps_sadhiro ki Dhani | POKARAN | Primary | 49 | 16.3:1 |
| Govt. Minority Residential School Nachna | NACHANA | Upper Primary only | 48 | 24.0:1 |
| Govt. Ps_muhar | SAM | Primary | 48 | 24.0:1 |
| Govt.PS_CHAK_5AWD_AWAYE | NACHANA | Primary | 48 | 16.0:1 |
| Govt.Ps_dhanuaa | JAISALMER | Primary | 48 | 48.0:1 |
| Madarsa Darul Ulum Qadriya Faize Rashdiya UPS.Sikshan Sanstha Sam | SAM | Primary with Upper Primary | 48 | 48.0:1 |
| Madarsa Peer Mohmadsah Jilani Dargah Samiti Shikshan Sansthan Ramgarh | SAM | Primary | 48 | 48.0:1 |
| MGGS Jhinjinyali Second | FATHEGARH | Pr. with Up.Pr. Sec. and H.Sec. | 48 | 12.0:1 |
| Data Shree Sohan Singh Lords Children Academy School Phalsund | BHANIYANA | Primary | 47 | 11.8:1 |
| Gov T. UPS Lado Katoba | MOHANGARH | Primary with Upper Primary | 47 | 9.4:1 |
| Govt. PS Karan Singh ki Dhani Rajgarh | BHANIYANA | Primary | 47 | 23.5:1 |
| Govt. Senior Secondary Sanskrit School Pokaran | POKARAN | Pr. with Up.Pr. Sec. and H.Sec. | 47 | 47.0:1 |
| Govt.Ps_jiyasar | BHANIYANA | Primary | 47 | 23.5:1 |
| Govt.Ps_meghwalo ki Dhani | NACHANA | Primary | 47 | 23.5:1 |
| Jagriti Public School | JAISALMER | Primary with Upper Primary | 47 | 6.7:1 |
| Madarsa Ahle Sunnat Val Jamaat Sikandari Ishaniyo ki Basti Bage Khan ki Dhani Kuchri | SAM | Primary | 47 | 47.0:1 |
| Madarsa Kadariya Roje Dhani Shikshan Sansthan Amar Nagar Bhagu ka Gaon | JAISALMER | Primary | 47 | 23.5:1 |
| UPS Sagar Seesu Mandir Jaisalmer | JAISALMER | Primary with Upper Primary | 47 | 7.8:1 |
| Gov.T Ups_baverla ki Dhani | BHANIYANA | Primary with Upper Primary | 46 | 46.0:1 |
| Govt. PS Mohmad ki Dhani | MOHANGARH | Primary | 46 | 23.0:1 |
| Govt. Sans. Ups_boraliki Dhani | POKARAN | Primary with Upper Primary | 46 | 46.0:1 |
| Govt.Primary sanskrit School Raad Dhara Wass Deva | MOHANGARH | Primary | 46 | 46.0:1 |
| Ojaswi Vidyalay Jaisalmer | JAISALMER | Primary | 46 | 6.6:1 |
| PS Radha Krishan Sikshan Sansthan Suthar Wala | MOHANGARH | Primary | 46 | 23.0:1 |
| UPS Madrsa Ahle Sunt Moinul Islam Pokaran | POKARAN | Primary with Upper Primary | 46 | 15.3:1 |
| UPS R.R.K. 192 RD SBS Bahla | MOHANGARH | Primary with Upper Primary | 46 | 23.0:1 |
| Govt UPS Ashutar | SAM | Primary with Upper Primary | 45 | 15.0:1 |
| Govt. Ps_bambaron ki Dhani | JAISALMER | Primary | 45 | 22.5:1 |
| Govt. Ps_nuraniyo ki Dhani | FATHEGARH | Primary | 45 | 22.5:1 |
| Govt. Ups_dadolai | POKARAN | Primary with Upper Primary | 45 | 11.3:1 |
| Govt. Ups_jodha | JAISALMER | Primary with Upper Primary | 45 | 6.4:1 |
| Madarsa Faize Sikandari Taalimool Kuran Bahla | MOHANGARH | Primary | 45 | 22.5:1 |
| Madarsa Gulshne Mohmadi Shikshan Sansthan | SAM | Primary | 45 | 45.0:1 |
| PS Roop Shree Reading Rainbow School Jaisalmer | JAISALMER | Primary | 45 | 5.0:1 |
| Ps_madarsa Faije Sikandriya | JAISALMER | Primary | 45 | 45.0:1 |
| UPS Gayatri Vidhya Mandir | JAISALMER | Primary with Upper Primary | 45 | 6.4:1 |
| Upsbhartiya Vidhya Mandir Pok. | POKARAN | Primary with Upper Primary | 45 | 5.6:1 |
| Govt. PS Hameeron ki Basti Sam | SAM | Primary | 44 | 44.0:1 |
| Govt. Ps_jay Chando ki Dhani | FATHEGARH | Primary | 44 | 22.0:1 |
| Govt. Ps_jinde Kha ki Dhani | FATHEGARH | Primary | 44 | 22.0:1 |
| PS SHRI 1008 Gu. Gor. Nath V.Man | SAM | Primary | 44 | 22.0:1 |
| PS Sunbeem Gafur Bhatta Jaisalmer | JAISALMER | Primary | 44 | 11.0:1 |
| Ps_madarsa Faze Sarwary Bachoro ki Dhani | BHANIYANA | Primary | 44 | 14.7:1 |
| Upper Primary Madarsa Sikandriya Siks. S. Nachna | NACHANA | Primary with Upper Primary | 44 | 22.0:1 |
| UPS Kuchaman Public School | POKARAN | Primary with Upper Primary | 44 | 14.7:1 |
| Govt.Ps_hayatpura | BHANIYANA | Primary | 43 | 21.5:1 |
| Govt.Ps_pokarpura | POKARAN | Primary | 43 | 10.8:1 |
| Govt.Upper Primary School Sekhovala | NACHANA | Primary with Upper Primary | 43 | 10.8:1 |
| Govt.Ups_sumeliyai | FATHEGARH | Primary with Upper Primary | 43 | 8.6:1 |
| Psmadarsa Faije Talimulah Samda Dhani Faledi | SAM | Primary | 43 | 43.0:1 |
| Govt UPS Birmani | FATHEGARH | Primary with Upper Primary | 42 | 14.0:1 |
| Govt. PS_19 SKD | NACHANA | Primary | 42 | 21.0:1 |
| Govt. Ps_bikhorai Juni | BHANIYANA | Primary | 42 | 14.0:1 |
| Govt. Ps_chha Dhani | MOHANGARH | Primary | 42 | 14.0:1 |
| Govt. Ups_sangana | JAISALMER | Primary with Upper Primary | 42 | 8.4:1 |