diff --git a/drivers/can/can_mcan.c b/drivers/can/can_mcan.c
index cf5aba19729..61240f2d3fd 100644
--- a/drivers/can/can_mcan.c
+++ b/drivers/can/can_mcan.c
@@ -540,6 +540,11 @@ void can_mcan_line_0_isr(const struct device *dev)
 	}
 
 	while ((ir & events) != 0U) {
+		err = can_mcan_write_reg(dev, CAN_MCAN_IR, ir & events);
+		if (err != 0) {
+			return;
+		}
+
 		if ((ir & (CAN_MCAN_IR_BO | CAN_MCAN_IR_EP | CAN_MCAN_IR_EW)) != 0U) {
 			can_mcan_state_change_handler(dev);
 		}
@@ -562,11 +567,6 @@ void can_mcan_line_0_isr(const struct device *dev)
 			LOG_ERR("Message RAM access failure");
 		}
 
-		err = can_mcan_write_reg(dev, CAN_MCAN_IR, events);
-		if (err != 0) {
-			return;
-		}
-
 		err = can_mcan_read_reg(dev, CAN_MCAN_IR, &ir);
 		if (err != 0) {
 			return;
@@ -721,6 +721,11 @@ void can_mcan_line_1_isr(const struct device *dev)
 	}
 
 	while ((ir & events) != 0U) {
+		err = can_mcan_write_reg(dev, CAN_MCAN_IR, events & ir);
+		if (err != 0) {
+			return;
+		}
+
 		if ((ir & CAN_MCAN_IR_RF0N) != 0U) {
 			LOG_DBG("RX FIFO0 INT");
 			can_mcan_get_message(dev, config->mram_offsets[CAN_MCAN_MRAM_CFG_RX_FIFO0],
@@ -741,11 +746,6 @@ void can_mcan_line_1_isr(const struct device *dev)
 			LOG_ERR("Message lost on FIFO1");
 		}
 
-		err = can_mcan_write_reg(dev, CAN_MCAN_IR, events);
-		if (err != 0) {
-			return;
-		}
-
 		err = can_mcan_read_reg(dev, CAN_MCAN_IR, &ir);
 		if (err != 0) {
 			return;