He could have found a magical artifact. There are many artifacts in the Harry Potter world that have strange and powerful abilities. It could be that this artifact has the power to create clones. He figures out how to use it, perhaps with the help of Hermione who is good at researching such things. And then he starts creating his clone army.
In this fanfiction, Harry might also include some of the Hogwarts ghosts in his army. After all, they have a long - standing relationship with the school. Peeves, for example, could be a wild card in the army. He can cause chaos among the enemies. And some of the older students who have a strong sense of justice, like Cedric Diggory's friends, could also be part of it.
Definitely Hermione. Her intelligence and vast knowledge of magic would be a great asset if cloned. She could help solve complex magical problems and come up with strategies in battles.
He might face opposition from the school authorities or other wizarding institutions. They could see his army - building as a threat. Also, finding resources to train and equip the army could be difficult. Magic items and training grounds are not easy to come by. And he has to keep the existence of the army a secret from the Death Eaters, which adds another layer of difficulty.
It could also change his relationships. His friends might be worried about this new and rather extreme power he has. They might question his motives and whether this is the right way to deal with the problems in the wizarding world. On the other hand, his enemies would definitely be more cautious around him.
In the 'Harry Potter makes a clone army fanfiction', perhaps Harry creates the clone army to protect Hogwarts. He might use some ancient magic spells he discovers in the library. These clones could be modeled after the greatest wizards in history, like Merlin. They would bring a whole new level of defense to the school against the dark forces.
One idea could be that Harry creates a school for magical creatures. He realizes that there are so many unique and often misunderstood creatures in the wizarding world, and he wants to give them a place to learn and grow. This school could teach them how to interact with wizards in a positive way, as well as develop their own magical abilities.
One idea could be that Harry discovers an ancient spell book in the Room of Requirement that has the incantations for creating a magic railgun. He might use it to defend Hogwarts against a new, powerful dark force that is immune to traditional magic spells.
The plot could start with Harry finding an ancient Jedi artifact during one of his adventures. This leads him to become curious about lightsabers. He then uses his magic knowledge to try and replicate it. Along the way, he might face opposition from some in the wizarding world who think it's too dangerous or against wizarding traditions. But Harry, being the hero he is, persists. Eventually, he creates a lightsaber and uses it to defeat a new, powerful dark wizard who has emerged, using both his wizarding skills and his new lightsaber skills.
In a fanfiction where Harry Potter creates a virus, perhaps it's a virus that affects magic itself. The virus could spread through spells and start to corrupt the very essence of magic. Harry, realizing the severity, might then have to team up with his old friends like Hermione and Ron. They would search for ancient magic or rare potions to counteract the virus before it destroys the entire magical ecosystem.