diff --git a/core/drivers/clk/sam/clk-sam9x60-pll.c b/core/drivers/clk/sam/clk-sam9x60-pll.c
index e3e79ce209e..84689cb4b50 100644
--- a/core/drivers/clk/sam/clk-sam9x60-pll.c
+++ b/core/drivers/clk/sam/clk-sam9x60-pll.c
@@ -235,6 +235,9 @@ static TEE_Result sam9x60_frac_pll_set_rate_chg(struct clk *hw,
 
 	ret = sam9x60_frac_pll_compute_mul_frac(frac, rate, parent_rate, true);
 	if (ret == TEE_SUCCESS) {
+		io_clrsetbits32(regmap + AT91_PMC_PLL_UPDT,
+				AT91_PMC_PLL_UPDT_ID_MASK, core->id);
+
 		io_write32(regmap + AT91_PMC_PLL_CTRL1,
 			   SHIFT_U32(frac->mul, core->layout->mul_shift) |
 			   SHIFT_U32(frac->frac, core->layout->frac_shift));
@@ -277,6 +280,9 @@ static TEE_Result sam9x60_div_pll_set_div(struct sam9x60_pll_core *core,
 	uint32_t enable_mask = enable ? core->layout->endiv_mask : 0;
 	uint32_t ena_val = enable ? BIT(core->layout->endiv_shift) : 0;
 
+	io_clrsetbits32(regmap + AT91_PMC_PLL_UPDT,
+			AT91_PMC_PLL_UPDT_ID_MASK, core->id);
+
 	io_clrsetbits32(regmap + AT91_PMC_PLL_CTRL0,
 			core->layout->div_mask | enable_mask,
 			SHIFT_U32(div, core->layout->div_shift) | ena_val);