Background The pre-cure temperature is considered an important parameter that affects the polymerization kinetics and the properties of composite restoration. As dissension exists about the effect of storing composite restorative materials in refrigerator, this study aimed to assess the effect of shelf-storage temperature on degree of conversion (DC) and microhardness of three composite restorative materials with different matrix systems. Methods Three commercially-available composite restorative materials were used in this study; an Ormocer-based composite (Admira Fusion, Voco GmbH), a nanoceramic composite, (Ceram.X SphereTEC One, Dentsply Sirona GmbH), and a nanohybrid composite (Tetric N-Ceram, Ivoclar Vivadent AG). Regarding DC and microhardness tests, 60 disc-shaped composite specimens for each test were randomly divided into 3 groups (n = 20) according to the restorative material used. Each group was divided into 2 subgroups (n = 10) according to the composite storage temperature; stored at room temperature or stored in the refrigerator at 4°–5 °C. DC was evaluated using a Fourier-transform infrared spectrometer coupled to an attenuated total reflectance accessory. Microhardness was evaluated using micro-Vickers hardness tester under a load of 50 g with a dwell time of 10 s. The results were analyzed by ANOVA, post-hoc LSD, and independent t-tests at a significance level of p < 0.05. Results Regarding DC test all groups showed statistically significant differences at both storage temperature. The Ormocer-based composite had the highest mean values. There was a statistically significant difference between all room-stored groups and their corresponding groups stored at refrigerator (p < 0.05). For microhardness test, all groups exhibited also statistically significant differences at both storage temperatures with the Ormocer-based composite having the highest mean values. A statistically significant difference between both room-stored and refrigerator-stored groups has been observed also (p < 0.05). Conclusions Refrigeration of resin-composite might have a deleterious effect on DC and microhardness of the tested composite restorative materials with different matrix systems. Moreover, the differences in the formulations of composite matrix have a potential impact on DC and microhardness.