diff --git a/vp10/vp10_cx_iface.c b/vp10/vp10_cx_iface.c
index 409ed1ce2..6227708c4 100644
--- a/vp10/vp10_cx_iface.c
+++ b/vp10/vp10_cx_iface.c
@@ -1154,30 +1154,6 @@ static vpx_image_t *encoder_get_preview(vpx_codec_alg_priv_t *ctx) {
   }
 }
 
-static vpx_codec_err_t ctrl_update_entropy(vpx_codec_alg_priv_t *ctx,
-                                           va_list args) {
-  const int update = va_arg(args, int);
-
-  vp10_update_entropy(ctx->cpi, update);
-  return VPX_CODEC_OK;
-}
-
-static vpx_codec_err_t ctrl_update_reference(vpx_codec_alg_priv_t *ctx,
-                                             va_list args) {
-  const int ref_frame_flags = va_arg(args, int);
-
-  vp10_update_reference(ctx->cpi, ref_frame_flags);
-  return VPX_CODEC_OK;
-}
-
-static vpx_codec_err_t ctrl_use_reference(vpx_codec_alg_priv_t *ctx,
-                                          va_list args) {
-  const int reference_flag = va_arg(args, int);
-
-  vp10_use_as_reference(ctx->cpi, reference_flag);
-  return VPX_CODEC_OK;
-}
-
 static vpx_codec_err_t ctrl_set_roi_map(vpx_codec_alg_priv_t *ctx,
                                         va_list args) {
   (void)ctx;
@@ -1274,9 +1250,6 @@ static vpx_codec_err_t ctrl_set_render_size(vpx_codec_alg_priv_t *ctx,
 
 static vpx_codec_ctrl_fn_map_t encoder_ctrl_maps[] = {
   {VP8_COPY_REFERENCE,                ctrl_copy_reference},
-  {VP8E_UPD_ENTROPY,                  ctrl_update_entropy},
-  {VP8E_UPD_REFERENCE,                ctrl_update_reference},
-  {VP8E_USE_REFERENCE,                ctrl_use_reference},
 
   // Setters
   {VP8_SET_REFERENCE,                 ctrl_set_reference},
diff --git a/vp8/vp8_cx_iface.c b/vp8/vp8_cx_iface.c
index 80ea6b432..c125ae84d 100644
--- a/vp8/vp8_cx_iface.c
+++ b/vp8/vp8_cx_iface.c
@@ -1277,9 +1277,6 @@ static vpx_codec_ctrl_fn_map_t vp8e_ctf_maps[] =
     {VP8_SET_REFERENCE,                 vp8e_set_reference},
     {VP8_COPY_REFERENCE,                vp8e_get_reference},
     {VP8_SET_POSTPROC,                  vp8e_set_previewpp},
-    {VP8E_UPD_ENTROPY,                  vp8e_update_entropy},
-    {VP8E_UPD_REFERENCE,                vp8e_update_reference},
-    {VP8E_USE_REFERENCE,                vp8e_use_reference},
     {VP8E_SET_FRAME_FLAGS,              vp8e_set_frame_flags},
     {VP8E_SET_TEMPORAL_LAYER_ID,        vp8e_set_temporal_layer_id},
     {VP8E_SET_ROI_MAP,                  vp8e_set_roi_map},
diff --git a/vp9/vp9_cx_iface.c b/vp9/vp9_cx_iface.c
index b54c985d1..6ccba0f8c 100644
--- a/vp9/vp9_cx_iface.c
+++ b/vp9/vp9_cx_iface.c
@@ -1267,30 +1267,6 @@ static vpx_image_t *encoder_get_preview(vpx_codec_alg_priv_t *ctx) {
   }
 }
 
-static vpx_codec_err_t ctrl_update_entropy(vpx_codec_alg_priv_t *ctx,
-                                           va_list args) {
-  const int update = va_arg(args, int);
-
-  vp9_update_entropy(ctx->cpi, update);
-  return VPX_CODEC_OK;
-}
-
-static vpx_codec_err_t ctrl_update_reference(vpx_codec_alg_priv_t *ctx,
-                                             va_list args) {
-  const int ref_frame_flags = va_arg(args, int);
-
-  vp9_update_reference(ctx->cpi, ref_frame_flags);
-  return VPX_CODEC_OK;
-}
-
-static vpx_codec_err_t ctrl_use_reference(vpx_codec_alg_priv_t *ctx,
-                                          va_list args) {
-  const int reference_flag = va_arg(args, int);
-
-  vp9_use_as_reference(ctx->cpi, reference_flag);
-  return VPX_CODEC_OK;
-}
-
 static vpx_codec_err_t ctrl_set_roi_map(vpx_codec_alg_priv_t *ctx,
                                         va_list args) {
   (void)ctx;
@@ -1483,9 +1459,6 @@ static vpx_codec_err_t ctrl_set_render_size(vpx_codec_alg_priv_t *ctx,
 
 static vpx_codec_ctrl_fn_map_t encoder_ctrl_maps[] = {
   {VP8_COPY_REFERENCE,                ctrl_copy_reference},
-  {VP8E_UPD_ENTROPY,                  ctrl_update_entropy},
-  {VP8E_UPD_REFERENCE,                ctrl_update_reference},
-  {VP8E_USE_REFERENCE,                ctrl_use_reference},
 
   // Setters
   {VP8_SET_REFERENCE,                 ctrl_set_reference},
diff --git a/vpx/vp8cx.h b/vpx/vp8cx.h
index 287ecfed5..bd99c6dc1 100644
--- a/vpx/vp8cx.h
+++ b/vpx/vp8cx.h
@@ -141,29 +141,11 @@ extern vpx_codec_iface_t *vpx_codec_vp10_cx(void);
  * \sa #vpx_codec_control
  */
 enum vp8e_enc_control_id {
-  /*!\brief Codec control function to set mode of entropy update in encoder.
-   *
-   * Supported in codecs: VP8, VP9
-   */
-  VP8E_UPD_ENTROPY           = 5,
-
-  /*!\brief Codec control function to set reference update mode in encoder.
-   *
-   * Supported in codecs: VP8, VP9
-   */
-  VP8E_UPD_REFERENCE,
-
-  /*!\brief Codec control function to set which reference frame encoder can use.
-   *
-   * Supported in codecs: VP8, VP9
-   */
-  VP8E_USE_REFERENCE,
-
   /*!\brief Codec control function to pass an ROI map to encoder.
    *
    * Supported in codecs: VP8, VP9
    */
-  VP8E_SET_ROI_MAP,
+  VP8E_SET_ROI_MAP           = 8,
 
   /*!\brief Codec control function to pass an Active map to encoder.
    *
@@ -721,17 +703,6 @@ typedef struct vpx_svc_ref_frame_config {
  *
  */
 
-
-/* These controls have been deprecated in favor of the flags parameter to
- * vpx_codec_encode(). See the definition of VP8_EFLAG_* above.
- */
-VPX_CTRL_USE_TYPE_DEPRECATED(VP8E_UPD_ENTROPY,            int)
-#define VPX_CTRL_VP8E_UPD_ENTROPY
-VPX_CTRL_USE_TYPE_DEPRECATED(VP8E_UPD_REFERENCE,          int)
-#define VPX_CTRL_VP8E_UPD_REFERENCE
-VPX_CTRL_USE_TYPE_DEPRECATED(VP8E_USE_REFERENCE,          int)
-#define VPX_CTRL_VP8E_USE_REFERENCE
-
 VPX_CTRL_USE_TYPE(VP8E_SET_FRAME_FLAGS,        int)
 #define VPX_CTRL_VP8E_SET_FRAME_FLAGS
 VPX_CTRL_USE_TYPE(VP8E_SET_TEMPORAL_LAYER_ID,  int)