diff --git a/drivers/pci/controller/dwc/pci-imx6.c b/drivers/pci/controller/dwc/pci-imx6.c
index 7a9047f0a27a5cb2a77c1a166b4cdae134c83c1c..cd151222d000e071cfe70eb2b0e6bdee204f881a 100644
--- a/drivers/pci/controller/dwc/pci-imx6.c
+++ b/drivers/pci/controller/dwc/pci-imx6.c
@@ -655,10 +655,10 @@ static int imx6_pcie_clk_enable(struct imx6_pcie *imx6_pcie)
 
 static void imx6_pcie_clk_disable(struct imx6_pcie *imx6_pcie)
 {
+	imx6_pcie_disable_ref_clk(imx6_pcie);
 	clk_disable_unprepare(imx6_pcie->pcie);
-	clk_disable_unprepare(imx6_pcie->pcie_phy);
 	clk_disable_unprepare(imx6_pcie->pcie_bus);
-	imx6_pcie_disable_ref_clk(imx6_pcie);
+	clk_disable_unprepare(imx6_pcie->pcie_phy);
 }
 
 static void imx6_pcie_assert_core_reset(struct imx6_pcie *imx6_pcie)