this is a very good question. it's funny as i don't consider myself a big shipping kind of guy but there are two that i absolutely adore

first one is nia x rex (xenoblade chronicles 2). when i first played through the game i remember getting actively heated at the notion that there was even a rat's chance in hell that they didn't hook up. while i see why people like pyra/mythra x rex a lot i feel that a lot of nia's character development hinges on her relationship with rex so i ship it a lot to the point that i consider myself the strongest nia x rex fan. knowing that she hooks up with rex in xenoblade chronicles 3 is great but i really REALLY like the two of them together to the point that i actively seek out content of them both together

second one is yuugi x suika touhou. i'm not actually a huge yuugi/parsee fellow personally but ever since i wrote yuugi and suika together i've increasingly been shipping them a lot. i have this dynamic in my head where they're absolutely inseparable and have an on-off relationship every few decades and it is fucking cute imagining them being head over heels for each other. i ship it a lot