diff --git a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_21.snap b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_21.snap
index 7ca0100335ed9..9355bae0dbd8e 100644
--- a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_21.snap
+++ b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_21.snap
@@ -1,5 +1,6 @@
 ---
 source: crates/sui-protocol-config/src/lib.rs
+assertion_line: 1578
 expression: "ProtocolConfig::get_for_version(cur, *chain_id)"
 ---
 version: 21
diff --git a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_44.snap b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_44.snap
index b1c1dcf2bad16..d4e7aa90b2f10 100644
--- a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_44.snap
+++ b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_44.snap
@@ -260,4 +260,3 @@ max_age_of_jwk_in_epochs: 1
 random_beacon_reduction_allowed_delta: 800
 consensus_max_transaction_size_bytes: 262144
 consensus_max_transactions_in_block_bytes: 6291456
-
diff --git a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_50.snap b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_50.snap
index 5941b1fcedc16..9d142ad4f11c7 100644
--- a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_50.snap
+++ b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Mainnet_version_50.snap
@@ -269,4 +269,3 @@ random_beacon_reduction_allowed_delta: 800
 consensus_max_transaction_size_bytes: 262144
 consensus_max_transactions_in_block_bytes: 6291456
 max_deferral_rounds_for_congestion_control: 10
-
diff --git a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Testnet_version_44.snap b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Testnet_version_44.snap
index 87d3f97634bc9..e2f643d2e776d 100644
--- a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Testnet_version_44.snap
+++ b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Testnet_version_44.snap
@@ -262,4 +262,3 @@ max_age_of_jwk_in_epochs: 1
 random_beacon_reduction_allowed_delta: 800
 consensus_max_transaction_size_bytes: 262144
 consensus_max_transactions_in_block_bytes: 6291456
-
diff --git a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Testnet_version_50.snap b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Testnet_version_50.snap
index e6c194f4402a4..894bc84497f49 100644
--- a/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Testnet_version_50.snap
+++ b/crates/sui-protocol-config/src/snapshots/sui_protocol_config__test__Testnet_version_50.snap
@@ -278,4 +278,3 @@ consensus_max_transactions_in_block_bytes: 6291456
 max_deferral_rounds_for_congestion_control: 10
 min_checkpoint_interval_ms: 200
 checkpoint_summary_version_specific_data: 1
-
diff --git a/scripts/compatibility/check-protocol-compatibility.sh b/scripts/compatibility/check-protocol-compatibility.sh
index bff2f9a71a677..2fd661e81cd98 100755
--- a/scripts/compatibility/check-protocol-compatibility.sh
+++ b/scripts/compatibility/check-protocol-compatibility.sh
@@ -75,6 +75,19 @@ else
 fi
 
 echo "Checking for changes to snapshot files matching $NETWORK_PATTERN"
+
+# The fields `scoring_decision_mad_divisor`, `scoring_decision_cutoff_value` were removed from the protocol config,
+# but they are still present in older snapshot files. We need to delete them from the snapshot files before 
+# checking if the git repo is clean.
+# TODO: Remove this workaround once commit 3959d9af51172824b0e4f20802c71e416596c7df has been release to all networks.
+SED=$(which gsed)
+if [ -z "$SED" ]; then
+  SED=$(which sed)
+fi
+
+grep -lE 'scoring_decision_mad_divisor|scoring_decision_cutoff_value' crates/sui-protocol-config/src/snapshots/$NETWORK_PATTERN | xargs $SED -Ei '/(scoring_decision_mad_divisor|scoring_decision_cutoff_value)/d'
+git add .
+
 check_git_clean "Detected changes to snapshot files since $ORIGIN_COMMIT - not safe to release" "$NETWORK_PATTERN"
 
 # remove any snapshot file changes that were ignored