We all know about upcoming plans for the Marvel Cinematic Universe from the Netflix shows to Phase 3 movies and Marvel may have trouble managing to fit all of these in the Universe but I have with five possible ways Marvel could fit all of these future series into the universes and spoilers for the movies and TV shows.
Honourable Mentions (for properties that are owned by Marvel but have yet to be confirmed for the MCU)
Ghost Rider: this one might be tricky but I think I have come up with something. In the Agents of SHIELD episode Repairs there was Tobias Ford who was trapped between this world and a world he claimed was Hell. Well what if Mephisto the demon that made with the deal with Johnny Blaze, was a being that rules over this other world? All Marvel would have to do is confirm that he is indeed from that other world.
Punisher: all you would have to do is establish like in Punisher War Zone, Frank has been operating his one man war on crime for a few years but when SHIELD was still in the public eye (before anyone learned about HYDRA) that since he targeted the mobs in his cities and gangs that he was not a big enough issue that SHIELD left the police to deal with trying to arrest him or planning on recruiting him if they decide he is good enough for them.
5. Power Sources
The sources of the powers of characters like Luke Cage or Spider-Man I think is easy enough to explain: they were trying to replicate the Super Soldier Serum. Coulson acknowledges in the Avengers that a lot of people were trying to duplicate it but apart from Ross having Banner trying to use Gamma Radiation in the backstory of the Incredible Hulk as well as giving Blonsky a low dose of a serum they made, we actually have not seen much of this (unless you count Extremis from Iron Man 3 and the Centipede Serum in Agents of SHIELD). They can say the experiment that Luke Cage his powers was trying to replicate the serum and they can say what gave Spidey his powers was a super soldier serum called OZ just like in the Ultimate Spider-Man comic.
4. Jessica Jones
So Jessica Jones in her backstory already was a superhero called Jewel before an incident with the Purple Man (who will be played by the Tenth Doctor himself David Tennant) caused her to quit. I think in a flashback they can show that after Jessica quits she was approached by SHIELD that provided her with therapy to help her to cope and that she was one of the Gifted on their Index. They can establish that it was before the Avengers and since her superhero career was shirt lived, that was why no one really heard of her.
3. Captain Marvel
Since it will be Carol who will be the Captain, they can still use Mar Vell but have him be an agent of the Kree that was one of those to sent to Earth to investigates the emerging Inhumans like the one who had appeared on Agents of SHIELD. They can state Carol is an Inhuman or here will be an accident where Carol is exposed to a Kree energy weapon that caused her to be endowed with teh energy that gave her the powers and because the weapon was so powerful it will turn her into what Kevin Fiege said would be the universe’s most powerful hero.
2. Inhumans Royal Family
Speaking of the Inhumans, to establish the Royal Family there could be a flashback in the movie or in Agents of SHIELD that showed that Skye’s mother Jiaying had led several Inhumans she took under her wing over the years to an underground Kree City (like the one used in the Winter finale of Agents of SHIELD or it might be the same one) where the Inhumans turned into their home and called Attilan. Among these Inhumans would be Black Bolt and Medusa who would become the ruling couple of this city.
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Introduce Spider-Man
We all know that Spidey will be introduced in costume in a movie before his official one in the MCU and which seems will be Captain America: Civil War but I got an idea on how to introduce a pre Spider-Man Peter Parker to the MCU before. Since the Daredevil Netflix show takes place after the Avengers and it may take place before Winter Soldier, there may be a scene where Matt Murdock takes a business trip to Queens where he sees a teenager getting picked on by bullies. He scares them away and helps the kid up and helps him get to his home, the kid goes inside to meet his aunt and uncle who calls him Peter. Then in the Civil War movie they can establish that Peter had gotten his powers since then.