Storylines you'd like to see for Jon in the near future
Jon is here, and Jon is here to stay regardless what one may think of him. So this isn't for "Jon dies" type responses, I'm interested in serious ideas about storylines for the new kid going forward. I have a few.
1. The Sickness. This was an idea I touted early and still like, and would tie into the return of Kon-El. In this idea, with Jon's blossoming powers also comes some genetic conflicts between his Kryptonian and Human DNA that makes Jon ill. Think of the clone sickness in the 90s, in a way. Tries he might through various sources, Superman can't find a cure on his own. Not even Lex can help (and, oddly enough, he genuinely tries). In the meantime Jon is kidnapped by the Phantom King looking to make life hell for Superman once again. He draws him into the Phantom Zone and Superman can't follow as Xa-Du destroys the projector. In an odd twist though, being in the Zone is keeping Jon's illness from progressing. So its a Catch-22. Get Jon out and the illness progresses, or leave him in the Zone with a madman who will probably kill him anyway. As the King prepares to deliver a devastating blow using his tech to make him and Jon corporeal, where only Superman, Lois and his loved ones can watch (in a crossover Batman issue, Damian goes crazy trying everything he can to get inside the Zone but fails) when the blow is blocked by a mysterious figure, which turns out to be the triumphant return of Conner. Trapped in the Zone himself via mysterious means, Kon beats the hell out of Xa-Du, escapes with his brother, and once out its discovered his unique clone blood actually is the key to cure Jon's own illness.
2. Eradication Aborted. Another early idea I had, this continues with what the first Superman arc developed in regards to the Eradicator wanting to "purify" Jon to a Kryptonian ideal as he's an abomination with mixed human DNA. Following a famous Dragon Ball Z storyline, the villain continues with his plans to try and purify Jon, having a few one-on-one encounters with the boy along the way. As he gets to know the child in his failed plots, a part of him cannot help but grow to care for him. When push comes to shove, Jon unlocks a spark of humanity within the Eradicator, and in the end, he is redeemed by saving Jon's life and the two end up becoming odd-couple friends, with Superman's sometimes ally, sometimes nemesis becoming Jon's surrogate protector.
3. Grandpa Sam. This wouldn't be dedicated to any particular arc per se but would be the growing dynamic between Jon and his only grandparent, Sam Lane. Due to the strained relationship between Sam and Lois, Jon has very little if any coherent memories of his grandfather. Clark and Lois eventually decide its not fair to keep the two apart and Jon "meets" his grandfather and the two begin to build a relationship. However, Sam's prejudice against Superman and aliens still remain, and along the way, Sam discovers that Clark Kent, whom he already doesn't really like that much, is actually Superman. With this shocking revelation that his daughter is married to Superman comes the fact that his only grandson is half-Kryptonian. This throws Jon for a loop, and through many trials where he briefly shuns the family and even considers betraying them to his government, eventually comes full circle into confronting and overcoming his prejudices, realizing the fool he's been for holding it against his family, reuniting with Jon again, loving the boy genuinely, repairing his relationship with Lois and even coming to a truce with the Man of Steel. Putting family over career for the first time in his life Sam is a man of two lives; he's a military man loyal to his country...but not at the expense of his family anymore.