A plot could involve Anakin and Ahsoka being framed for a crime within the Jedi Order. They then have to work together to clear their names, all while uncovering a conspiracy within the Order that could have far - reaching consequences for the galaxy.
Maybe a story where Ahsoka has a premonition about Anakin's fall to the dark side. She tries to prevent it in secret, which leads to all sorts of dangerous situations and moral dilemmas as she struggles with whether to tell the Jedi Council or handle it on her own.
In many fanfictions, Ahsoka and Anakin's relationship is complex. Anakin was Ahsoka's master during the Clone Wars. Their bond was like that of a brother and sister at times. Ahsoka learned a great deal from Anakin, not just about the Force but also about combat and decision - making. Anakin, on the other hand, saw Ahsoka as someone he could trust and rely on in the chaos of war.
One plot idea could be Ahsoka and Lux teaming up to uncover a hidden Sith plot within the Clone Wars. They might stumble upon a secret Sith artifact that the Separatists are trying to use to gain an upper hand.
One idea could be exploring a mission that Ahsoka and Anakin go on where they get stranded on an unknown planet. They have to rely on each other's skills to survive and in the process, Anakin imparts some deeper Jedi wisdom to Ahsoka. Another could be a story set during the Clone Wars where they face a new and powerful Sith enemy together, forcing them to combine their fighting styles in a unique way.
One plot idea could be Ahsoka getting lost in a strange, uncharted part of the galaxy during the Clone Wars and having to rely on her wits and the help of some unexpected allies to find her way back. Another could be Ahsoka facing a dark side version of herself, created by a Sith's manipulation of the Force.
Their relationship can be explored through their training sessions. Show how Anakin's unorthodox teaching methods influence Ahsoka's growth as a Jedi. For example, he might encourage her to trust her instincts more, which could lead to both success and trouble in different situations.
In some fanfictions, Anakin's past as a slave greatly influences his character during The Clone Wars. It might be explored how his experiences of being a slave shape his views on freedom and power. For example, he could be more empathetic towards the enslaved in certain storylines, or his fear of losing his new - found freedom could drive some of his actions during battles and political situations in the Clone Wars era.
A great plot for Star Wars The Clone Wars fanfiction could be centered around a new, unknown planet that gets caught in the middle of the war. The planet has its own unique species and culture. The story could follow how the clone troopers and the Jedi interact with this new civilization, whether they try to protect it or use it for their own strategic advantages. Or perhaps a story where a group of clone troopers start to develop their own individual personalities and question their loyalty to the Republic due to some unethical orders they receive. This could lead to a conflict within the clone ranks and force the Jedi to take sides.
A more complex plot could be Anakin's encounter with a Sith artifact during the Clone Wars. He's tempted by its power, and it starts to influence his actions and thoughts. He has to struggle with this newfound temptation while still fighting in the war, which could foreshadow his fall to the dark side.
Anakin and Padme could go on a secret mission together during the Clone Wars. They'd have to hide their relationship while facing all kinds of dangerous enemies and situations. It would be exciting to see how they use their respective skills, Anakin's Jedi powers and Padme's political acumen, to get out of trouble.
One possible fanfiction could be about Rex and Ahsoka going on a secret mission together. They might face a new and dangerous enemy that the Republic has not yet encountered. Rex would use his military tactics and Ahsoka her Jedi skills to overcome the challenges.