Definitely Ben and Liara. Liara has strong biotic abilities and knowledge of the Protheans. Ben could bring his alien forms' powers to the table. They could combine their powers to uncover ancient secrets in the Mass Effect universe that might be related to Ben's Omnitrix or his alien origins.
I think a pairing between Ben and Tali would be really cool. Tali is a brilliant engineer, and Ben's Omnitrix is a high - tech device. She could help him understand and maybe even upgrade it, while he could protect her with his alien powers during their adventures.
Alex Mercer would be the most interesting. His abilities are so unique. In the Mass Effect universe, he could completely disrupt the power balance. He can shapeshift into anyone, which means he could infiltrate the Citadel Council or any other important organization with ease. His superhuman strength and regenerative abilities would also make him a formidable force against the enemies in Mass Effect, like the Collectors or the Reapers.
Lara Croft and Commander Shepard would be an obvious and very interesting pairing. They are both strong leaders and adventurers. Lara's knowledge of ancient civilizations and her survival skills could complement Shepard's military leadership and combat experience in space battles. They could learn a great deal from each other.
Thane Krios and Darth Maul. Thane is a deadly assassin in the Mass Effect universe, and Darth Maul is a Sith assassin. It would be fascinating to see them in a battle of wits and skills. Thane's stealth and marksmanship against Darth Maul's lightsaber skills and Sith magic would make for an intense encounter.
Shepard and Captain America would be a great pairing. Both are leaders and have a strong sense of justice. Shepard could learn about Captain America's more old - fashioned values and leadership style from a different time, while Captain America could be impressed by Shepard's ability to lead in a diverse and technologically advanced universe.
I think Ben and Deku would be an interesting pairing. Deku is all about analyzing and strategizing, while Ben has the power of the Omnitrix. Deku could help Ben figure out better ways to use his alien forms in combat, and Ben could show Deku some really out - of - this - world powers.
Asura and Shepard would be really interesting. Shepard is used to leading and making tough decisions, while Asura is driven by his wrath. Their different personalities would create a lot of tension and also great moments of cooperation. For example, when facing a tough battle, Shepard might try to come up with a strategic plan, but Asura could just charge in with his brute force. They would have to learn to work together.
Deku and Shepard would be an interesting pairing. Deku is a young hero - in - training with a lot to learn, and Shepard is an experienced leader. Shepard could mentor Deku, and Deku could show Shepard the power of having a quirk. Their different backgrounds and skills would make for great character development.
Shepard and Cayde - 6 would be an interesting pair. Shepard is a skilled military leader, and Cayde - 6 is a witty and resourceful Guardian. Their different personalities and combat skills could lead to some great banter and teamwork.
The Doom Slayer and Ruby. Ruby is young and full of hope, always looking for adventure. The Doom Slayer is a stoic, battle - hardened warrior. Their interaction would be really interesting. Ruby could be in awe of his strength and weapons, and the Doom Slayer might see a bit of his own unwavering will in Ruby.
It could be Ben himself. Imagine him using his alien forms in the Naruto universe. His Heatblast form could be really useful against ice - based jutsu, and Four Arms could take on some of the physically strong ninja. He would bring a whole new element of power and chaos to the Naruto world, and his reactions to the different cultures and powers in Naruto's world would be interesting to explore.