Objective. This study aims at comparing dosimetric parameters of 126 MeV antiprotons and protons using microdosimetric approach. Approach. Microdosimetric distributions of 126 MeV proton and antiproton beams at 1 μm site size are calculated using the Monte Carlo-based FLUKA code. The distributions are calculated at various depths along the central axis in water phantom as well as at different off-axis locations. The study also includes calculations of secondary radiations produced by antiprotons and protons. Mean quality factor, Q¯ is calculated using the ICRP 60 and ICRU 40 recommendations. The Relative Biological Effectiveness (RBE) of HSG tumour cell at 10% survival level is calculated based on Microdosimetric Kinetic Model. Main results. Q¯ICRP, Q¯ICRU and RBE for antiprotons are higher by a factor of about 3.60, 3.41 and 1.24, respectively, at Bragg-peak and higher by a factor of about 1.41, 1.76 and 1.05, respectively, at plateau region of depth-dose profile when compared to protons. At 15 cmdepth along the central axis, Q¯ICRP, Q¯ICRU and RBE for protons are higher by a factor of about 1.42, 1.66 and 1.26, respectively, when compared to antiprotons. At the off-axis distance (Ld) of 6 cm (at 11.5 cm depth in water), Q¯ICRP and Q¯ICRU of protons are higher than that of antiproton whereas the trend is opposite at off-axis distance of 4 cm. At Ld=4 cm (at 11.5 cm depth in water), RBE of antiprotons is higher by about 4% than protons whereas at Ld=6 cm, RBE of protons is higher by about 13% than antiprotons. Significance. The study shows that antiproton radiotherapy is advantageous as compared to protons considering enhancements in the absorbed dose and RBE-weighed dose values at the Bragg-peak.