The effect of the short milling times on R5(Si,Ge)4 R =Gd, Tb magnetocaloric material properties was investigated. In particular, the effect of milling on atomic structure, particles size and morphology, magnetic, and magnetocaloric effect was studied. With short milling times (< 2.5h), a reduction of the Gd5Si1.3Ge2.7 and Tb5Si2Ge2 particles size was achieved down to approximately 3.5 µm. For both compositions the main differences are a consequence of the milling effect on the coupling of the structural and magnetic transitions. In the Gd5Si1.3Ge2.7 case, a second-order phase transition emerges at high temperatures as a result of ball milling. Consequently, there is a decrease in the magnetocaloric effect of 35% after 150 minutes of milling. Interestingly, an opposite effect is observed in Tb5Si2Ge2 where a 23% increase of the magnetocaloric effect was achieved, driven by the enhancement of the coupling between magnetic and structural transitions arising from internal strain promoted by the milling process.