So I got this idea when I randomly decided 'Hey, I want to write a story where Tony's not human!' (Because that's real original). I had recently been watching old episodes of Doctor Who, so my mind wandered to Time Lord. I didn't want anything expected, so the Doctor was definitely a 'no'. I couldn't do the Master because Tony's not that crazy. And I didn't want to make an uncreative OC soooo... we instead get the super smart, if amoral scientist! This is just going to be a bunch of various one-shots and scenarios, so don't get any hopes up. Also, the gender pronouns will change on occasion, that's on purpose. They used to be female, and identify as gender neutral, but Tony Stark didn't (and doesn't correct people, to avoid attention) so when it's just him it will be male, but at other times, it's they/them.
Tony Stark was not, in fact, Maria and Howard Stark's son. Well, he was their son, but not biologically. When they found him, he was two years old and a genius. He already had quite advanced speech, and was easily able to solve problems. The only things with him were the clothes on his back, and an old fob watch which he seemed to love. Howard only cared about young Anthony's (Maria had chosen the name, because any and every child was priceless to her) intelligence, and he barely even noticed the watch. Maria, after several years of it gathering dust atop her dresser, moved it to the attic space where she kept everything related to her wonderful, brilliant son.
And there it sat, forgotten, with the consciousness within twisting, turning, wishing desperately to get out. The consciousness was, in fact, that of one of the most brilliant minds Gallifrey had ever seen. If the watch were ever opened, this world would not be prepared for.
The first time Tony noticed his old fob watch was right after Afghanistan. He was searching in the attic, doing something he hadn't done in a while. All through his childhood, Maria Stark was a reassuring presence. So sometimes, when he was truly upset, he'd look around the old attic of Stark mansion, searching for pictures of her. That was when he noticed it. It was old, but still in very good shape. There was a mark on it, a circle with a piece taken out of it, several dots, and some lines. For some reason he got the feeling that it was the name of whoever owned the watch. There was something about the slightly-battered metal that called to him.
Tony, before he could think of something better, opened the watch. A gold light flowed out, enveloping him. Before he could shoot or stop or even do anything, Tony remembered. A childhood on Gallifrey, the smartest in their class. Their classmates, mostly Theta Sigma and Koschei, who eventually became the Doctor and the Master. No matter what the Doctor said, he was a goody two-shoes after he left Gallifrey, and the Master just went kinda insane. Well, quite insane. Their own experiments exiling them from their home planet. Now that they had a human point of view, they could admit the experiments were pretty unethical. Then came the Last Great Time War. They couldn't exactly fight, seeing as they were exiled, and fearful of retribution from one side or another, they hid, regenerating into a small child, and then using a Chameleon Arch. They remembered where they hid their TARDIS (it was a willow tree on the edge of the Stark Mansion property).
The Rani had woken up, and they were ready to take on the world. Maybe, this time, not as a conqueror or enemy, but as a defender. Yes. They would take on the world with their new armor, combined with the advanced knowledge of a Time Lord, and the world wouldn't know what was coming. Honestly, they were considering making their armor just be a modified form of their TARDIS, but they didn't quite trust the humans who were constantly trying to get the suits. As if it wouldn't occur to them to make the suits isomorphically locked to them. Humans were quite ridiculous sometimes.
FYI I am posting this at 2:00 in the morning where I am, thank you insomnia.