Contradiction with Numbers 35:7
States a total of 48 Levitical cities, but Joshua 21:41 also mentions 48 cities, causing no direct contradiction.
Numbers 35:7: [So] all the cities which ye shall give to the Levites [shall be] forty and eight cities: them [shall ye give] with their suburbs.
Contradiction with Joshua 19:9
It mentions that Judah's territory was too large for them, which can indirectly contradict the allocation completeness suggested by Joshua 21:41.
Joshua 19:9: Out of the portion of the children of Judah [was] the inheritance of the children of Simeon: for the part of the children of Judah was too much for them: therefore the children of Simeon had their inheritance within the inheritance of them.