diff --git a/levels.go b/levels.go
index 2db260fb9..764fcd944 100644
--- a/levels.go
+++ b/levels.go
@@ -269,7 +269,8 @@ func (s *levelsController) dropTree() (int, error) {
 
 // dropPrefix runs a L0->L1 compaction, and then runs same level compaction on the rest of the
 // levels. For L0->L1 compaction, it runs compactions normally, but skips over all the keys with the
-// provided prefix. For Li->Li compactions, it picks up the tables which would have the prefix. The
+// provided prefix and also the internal move keys for the same prefix.
+// For Li->Li compactions, it picks up the tables which would have the prefix. The
 // tables who only have keys with this prefix are quickly dropped. The ones which have other keys
 // are run through MergeIterator and compacted to create new tables. All the mechanisms of
 // compactions apply, i.e. level sizes and MANIFEST are updated as in the normal flow.
@@ -298,13 +299,15 @@ func (s *levelsController) dropPrefix(prefix []byte) error {
 		}
 
 		var tables []*table.Table
+		// Internal move keys related to the given prefix should also be skipped.
+		moveKeyForPrefix := append(badgerMove, prefix...)
+		prefixesToSkip := [][]byte{prefix, moveKeyForPrefix}
 		for _, table := range l.tables {
 			var absent bool
 			switch {
-			case bytes.HasPrefix(table.Smallest(), prefix):
-			case bytes.HasPrefix(table.Biggest(), prefix):
-			case bytes.Compare(prefix, table.Smallest()) > 0 &&
-				bytes.Compare(prefix, table.Biggest()) < 0:
+			case hasAnyPrefixes(table.Smallest(), prefixesToSkip):
+			case hasAnyPrefixes(table.Biggest(), prefixesToSkip):
+			case containsAnyPrefixes(table.Smallest(), table.Biggest(), prefixesToSkip):
 			default:
 				absent = true
 			}
@@ -532,9 +535,12 @@ func (s *levelsController) compactBuildTables(
 		bopts.BfCache = s.kv.bfCache
 		builder := table.NewTableBuilder(bopts)
 		var numKeys, numSkips uint64
+		// Internal move keys related to the given prefix should also be skipped.
+		moveKeyForPrefix := append(badgerMove, cd.dropPrefix...)
+		prefixesToSkip := [][]byte{cd.dropPrefix, moveKeyForPrefix}
 		for ; it.Valid(); it.Next() {
 			// See if we need to skip the prefix.
-			if len(cd.dropPrefix) > 0 && bytes.HasPrefix(it.Key(), cd.dropPrefix) {
+			if len(cd.dropPrefix) > 0 && hasAnyPrefixes(it.Key(), prefixesToSkip) {
 				numSkips++
 				updateStats(it.Value())
 				continue
@@ -699,6 +705,27 @@ func buildChangeSet(cd *compactDef, newTables []*table.Table) pb.ManifestChangeS
 	return pb.ManifestChangeSet{Changes: changes}
 }
 
+func hasAnyPrefixes(s []byte, listOfPrefixes [][]byte) bool {
+	for _, prefix := range listOfPrefixes {
+		if bytes.HasPrefix(s, prefix) {
+			return true
+		}
+	}
+
+	return false
+}
+
+func containsAnyPrefixes(smallValue, largeValue []byte, listOfPrefixes [][]byte) bool {
+	for _, prefix := range listOfPrefixes {
+		if bytes.Compare(prefix, smallValue) > 0 &&
+			bytes.Compare(prefix, largeValue) < 0 {
+			return true
+		}
+	}
+
+	return false
+}
+
 type compactDef struct {
 	elog trace.Trace