A comparison of the pharmacodynamic effects of two source plants of Murrayae Folium et Cacumen (MFC), Murraya exotica L. and Murraya paniculata (L.) Jack, was performed in order to supply reference for its multi-source rationality and interchangeability in clinical practice. According to the traditional efficacy of MFC, the effects of promoting Qi, relieving pain, promoting blood circulation and removing blood stasis were systematically evaluated by the models of writhing response in mice, foot swelling in rats, gastric emptying and small intestine propulsion in mice, and acute blood stasis in rats, respectively. The results showed that both M. exotica and M. paniculata could significantly inhibit the writhing reaction induced by acetic acid in mice and the paw swelling induced by carrageenan in rats, reduce IL-6, TNF-α and PGE2 levels in plasma of paw-swelling rats and increase gastric empty rate and intestinal propulsive rate. The above-mentioned effects were dose-dependent, and there was no significant difference between M. exotica and M. paniculata at the same doses. Therefore, M. exotica and M. paniculata had the similar anti-inflammatory, analgesic and gastrointestinal motility promotion effects, which provided a support for the pharmacodynamic equivalence of the multi-source plants of MFC.