diff --git a/drivers/pci/controller/pci-aardvark.c b/drivers/pci/controller/pci-aardvark.c
index bb57ca6aed35..d5d6f92e5143 100644
--- a/drivers/pci/controller/pci-aardvark.c
+++ b/drivers/pci/controller/pci-aardvark.c
@@ -99,6 +99,7 @@
 #define     PCIE_CORE_CTRL2_MSI_ENABLE		BIT(10)
 #define PCIE_CORE_REF_CLK_REG			(CONTROL_BASE_ADDR + 0x14)
 #define     PCIE_CORE_REF_CLK_TX_ENABLE		BIT(1)
+#define     PCIE_CORE_REF_CLK_RX_ENABLE		BIT(2)
 #define PCIE_MSG_LOG_REG			(CONTROL_BASE_ADDR + 0x30)
 #define PCIE_ISR0_REG				(CONTROL_BASE_ADDR + 0x40)
 #define PCIE_MSG_PM_PME_MASK			BIT(7)
@@ -451,9 +452,15 @@ static void advk_pcie_setup_hw(struct advk_pcie *pcie)
 	u32 reg;
 	int i;
 
-	/* Enable TX */
+	/*
+	 * Configure PCIe Reference clock. Direction is from the PCIe
+	 * controller to the endpoint card, so enable transmitting of
+	 * Reference clock differential signal off-chip and disable
+	 * receiving off-chip differential signal.
+	 */
 	reg = advk_readl(pcie, PCIE_CORE_REF_CLK_REG);
 	reg |= PCIE_CORE_REF_CLK_TX_ENABLE;
+	reg &= ~PCIE_CORE_REF_CLK_RX_ENABLE;
 	advk_writel(pcie, reg, PCIE_CORE_REF_CLK_REG);
 
 	/* Set to Direct mode */