--- a/drivers/pci/controller/pcie-mediatek-gen3.c
+++ b/drivers/pci/controller/pcie-mediatek-gen3.c
@@ -375,7 +375,13 @@ static int mtk_pcie_startup_port(struct
 	msleep(100);
 
 	/* De-assert reset signals */
-	val &= ~(PCIE_MAC_RSTB | PCIE_PHY_RSTB | PCIE_BRG_RSTB | PCIE_PE_RSTB);
+	val &= ~(PCIE_MAC_RSTB | PCIE_PHY_RSTB | PCIE_BRG_RSTB);
+	writel_relaxed(val, pcie->base + PCIE_RST_CTRL_REG);
+
+	msleep(100);
+
+	/* De-assert PERST# signals */
+	val &= ~(PCIE_PE_RSTB);
 	writel_relaxed(val, pcie->base + PCIE_RST_CTRL_REG);
 
 	/* Check if the link is up or not */