Contradiction with Genesis 15:19
Genesis 10:16 lists the Jebusite as a descendant of Canaan, whereas Genesis 15:19 does not list the Jebusites among the peoples promised land by God to Abram's descendants.
Genesis 15:19: The Kenites, and the Kenizzites, and the Kadmonites,
Contradiction with Deuteronomy 7:1
Genesis 10:16 identifies the Jebusites as descendants of Canaan, but Deuteronomy 7:1 lists them among nations to be destroyed, implying their inferiority, contrary to the established origin.
Deuteronomy 7:1: When the LORD thy God shall bring thee into the land whither thou goest to possess it, and hath cast out many nations before thee, the Hittites, and the Girgashites, and the Amorites, and the Canaanites, and the Perizzites, and the Hivites, and the Jebusites, seven nations greater and mightier than thou;
Contradiction with Joshua 15:63
Genesis 10:16 lists the Jebusites as descendants of Canaan, but Joshua 15:63 shows they were not completely driven out by the tribe of Judah, contrary to their portrayal as inhabitants easily overcome.
Joshua 15:63: As for the Jebusites the inhabitants of Jerusalem, the children of Judah could not drive them out: but the Jebusites dwell with the children of Judah at Jerusalem unto this day.
Contradiction with Ezra 9:1
Genesis 10:16 suggests the Canaanites including Jebusites are historical peoples, whereas Ezra 9:1 presents them as persistently corrupt influences, conflicting with their origin significance.
Ezra 9:1: Now when these things were done, the princes came to me, saying, The people of Israel, and the priests, and the Levites, have not separated themselves from the people of the lands, [doing] according to their abominations, [even] of the Canaanites, the Hittites, the Perizzites, the Jebusites, the Ammonites, the Moabites, the Egyptians, and the Amorites.
Contradiction with Nehemiah 9:8
Genesis 10:16 implies Jebusites are descendants of Canaan, whereas Nehemiah 9:8, in recounting God's promises, doesn't mention them directly when listing peoples displaced for Israel, conflicting in recognition.
Nehemiah 9:8: And foundest his heart faithful before thee, and madest a covenant with him to give the land of the Canaanites, the Hittites, the Amorites, and the Perizzites, and the Jebusites, and the Girgashites, to give [it, I say], to his seed, and hast performed thy words; for thou [art] righteous: