First off, I must tell you while I feel that everyone has the right to support the pairing they like, there are some things you wrote that I don't agree with.
You said that that chest of materias in the church in AC probably belongs to Yuffie. She just left it there after visiting Cloud. I don't think so. I think what she meant when she exclaimed 'where's my materia' is just a playful jab. Throughout the game, she's always expressed an interest in everyone's materia. She even asked Cloud to sign a contract (on the airship) to give her all the materia after the final battle, which Cloud of course declined. Even so, Yuffie probably still refers to everyone's materia as hers.
Next, you said that one possible reason why Cloud always stayed away from home in AC is because he's not happy with Tifa. I think it's very safe to say (with all the hints given in the movie, especially the photos), that Cloud loved living with Tifa and the kids. But after he got inflicted with geostigma, a fatal diesease, he just retreated into himself. Like Tifa said, Cloud doesn't have the will to fight anymore. So chances are, Cloud just wanted a quiet place to live out the rest of his remaining life.
You also said that if Cloud liked Tifa, they should have gotten together already, in the two years between the game and AC. I don't think using time is a good measure of when a couple will actually get together. There is no should when it comes to when to fall in love.
Remember that Cloud has been through a lot of things in his life, so it is likely that he will take a much longer time to fully express his feelings.
Lastly, I think one very huge reason why Cloud never got together with Tifa or Aeris even to the very end of the movie is commercial purposes. By leaving this ambiguous, Squaresoft wouldn't have to deal with angry fans of the other pairing, and also, this would spawn a lot more speculation and interest in the series.
Of course, this doesn't mean that I'm telling you that Cloud/Yuffie doesn't work. They could, just like Cloud/Tifa and Cloud/Aeris. Hope you won't take any offense. ^^
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You said that that chest of materias in the church in AC probably belongs to Yuffie. She just left it there after visiting Cloud. I don't think so. I think what she meant when she exclaimed 'where's my materia' is just a playful jab. Throughout the game, she's always expressed an interest in everyone's materia. She even asked Cloud to sign a contract (on the airship) to give her all the materia after the final battle, which Cloud of course declined. Even so, Yuffie probably still refers to everyone's materia as hers.
Next, you said that one possible reason why Cloud always stayed away from home in AC is because he's not happy with Tifa. I think it's very safe to say (with all the hints given in the movie, especially the photos), that Cloud loved living with Tifa and the kids. But after he got inflicted with geostigma, a fatal diesease, he just retreated into himself. Like Tifa said, Cloud doesn't have the will to fight anymore. So chances are, Cloud just wanted a quiet place to live out the rest of his remaining life.
You also said that if Cloud liked Tifa, they should have gotten together already, in the two years between the game and AC. I don't think using time is a good measure of when a couple will actually get together. There is no should when it comes to when to fall in love.
Remember that Cloud has been through a lot of things in his life, so it is likely that he will take a much longer time to fully express his feelings.
Lastly, I think one very huge reason why Cloud never got together with Tifa or Aeris even to the very end of the movie is commercial purposes. By leaving this ambiguous, Squaresoft wouldn't have to deal with angry fans of the other pairing, and also, this would spawn a lot more speculation and interest in the series.
Of course, this doesn't mean that I'm telling you that Cloud/Yuffie doesn't work. They could, just like Cloud/Tifa and Cloud/Aeris. Hope you won't take any offense. ^^