I'd also like to express a possibility about the following games. It is not based on what has been announced till now nor what is highly expected, it is what I personally would like GF to produce.
1) I would LOVE to see a R/B/Y remake for the 3ds. Not a fan of gen one as a whole, but the scenario, the plot is just great to my eyes. As an addition I would love to see GameFreak giving the player a choice in the bridge at Cerulean city to join Team rocket or not. That may trigger different plots:
a) The player refuses to join team rocket: The plot will remain the same as we know it in R/B/Y or FR/LG. The player will receive the mega item (which triggers mega evolution) after they save that old man from team rocket at lavender town's graveyard tower. The pokeflute will be given by his assistant at the same time. The underground passages (which are empty at gens 1 and 3) will now be larger and include an emporium with the newer items (after gen 3) and the rest of the starters' mega stones. The rest of the mega stones will be found in random routes post game. Or there can be some link between XY for the fact that Charizard and Mewtwo have two mega evolutions and for example Pokemon Red will be linked to Y and Blue to X (colour match intended). That way the trainer will get Charizardite and Mewtwonite Y in Red's remake and X's mega stones in Blue's remake. Just a possibility.
b) The player accepts team rocket's offer: And that is basically a brand new conception. The player will be taken to Giovanni who will enquire some missions from the player up to the events in silph tower or hideout in the original games. When done correctly Giovanni gives the player the Mega item along with the player's starter mega stone and there starts another part. The player will now battle his co-grunts to become a higher grade team rocket member, to become an admin. When he does that he will meet Giovanni at a secret location and will discuss about team rocket's future plans. There will be a disagreement and after short time the player will battle Giovanni for the leader's place. Then the player dismantles the team and focuses on challenging the elite 4 (the badges will be obtained through the missions Giovanni had). Onwards the game will proceed normally.
c) The player refuses team rocket's offer but the rival joins: That one dawned on me when writing the post. What if? What if Gary (enter rival's name here) actually joined team rocket? The plot would remain normal most of the time, only the rival battles will be changed into some team rocket events where you would have to battle him. The story on the rival's side after joining Team rocket will be the same as above and he will be the final boss at the elite 4 with giovanni keeping his place at the eighth gym.
Mega evolutions in this game: The rival will have the mega stone that mega evolves his starter pokemon. That means:
Mega Blastoise (player) - Mega Venusaur (Rival)
Mega Charizard Red/y Blue/x (player) - Mega Blastoise (rival)
Mega Venusaur (player) - Mega Charizard Red/y X/Blue (rival)
Giovanni's mega evolution will be his greatest pokemon, meaning Nidoqueen, since Rhydon gained an evolution into Rhyperior. That being said we should see a Nidoqueen/Nidoking mega evolution similar to Latios and Latias, with the Pokemon having basically the same sprite. Either that, or seeing a Mega Rhyperior which would be too powerful to handle, and then we should see mega evos for Electivire, Togekiss, Dusknoir etc. as well.
The elite 4 will have mega evolutions on the rematch, like in ΩRαS. Lorelei with a Mega Lapras, Bruno with a Mega Machamp, Agatha with a Mega Gengar and Lance with a Mega Dragonite (the stone's name tho -iteite xD)
Some more mega evolutions that could be announced would be the following: Butterfree (since we saw Beedrill having one), Primeape, Rapidash (looking like a Pegasus maybe, gains wings and becomes a Fire/Flying type?), Marowak (that way we can see maybe a cutscene or an ingame event about that little Cubone and its mother that died?), Johto starters like you speculated before, Mega Shiftry, Mega Flygon, Mega Milotic, Mega Staraptor, Mega Toxicroak and Mega Garbodor (the one that no one uses). Or maybe some Pokemon from X/Y.
This was a huge post regarding the first gen of Pokemon. Only speaking about what I would like to see in a possible remake.
2) Regarding the new Pokemon game, I do not think this will be gen VII right off the bat. I'm guessing a game that is neither a prequel nor a sequel to XY. I'm guessing a game though where there will be Zygarde as the main legend and Hoopa and Volcanion as the side legends, forewarming us for the upcoming Gen VII. A plot completely different from XY, an autonomus one, but with no new Pokemon being introduced. We have all fonts for that: the fact that GF prepares a surprise, the (most likely) two formed Zygarde and the two overly powered Pokemon which GF did not unveil (Hoopa was only recently first officially seen and is likely to be distributed much later in time). The storyline will be about the clash between Hoopa and Volcanion and Zygarde being seen as a hero, like emerald with Groudon/Kyogre and Rayquaza. This time though the two Pokemon will not have a clash about which one would be more powerful than the other (too much water etc) but about obtaining a Mega stone each. There would just be too much hatred between these two which would cause them to ignore their search for what would make them mega evolve and focus on battling each other for a long time. Early in the game the player would only watch the clash as a cutscene. In the middle of the battle Zygarde would intervene and fight both Pokemon, making it very tired and hurt. The evil team will seize the chance and capture it when Hoopa and Volcanion will be leaving in search of the mega evolution secret. The player will fight to save Zygarde from the team and free it. By the time this is done, the two pokemon will be arriving at the place of a Huge rock which would offer them the power of mega evolution (maybe that big stone would give a stone their colour and after the pokemon's dna has been encoded into the Huge rock then we could have the creation of a mega stone). They battle again, much more powerful than before and showing off their signature moves and before we have a final winner Zygarde appears more powerful than ever giving an end to this battle once more. The rock will then create two items (not mega stones) that will cause Zygarde to change forme when holding one of those (something like Groudon and Kyogre only with the effect that Griseous orb has on Giratina). Again I repeat, this game will be used as a prequel to Generation VII. No new megas (or the exception of few, not as many as in XY/ORAS), no new pokemon (but the ability to catch them all).
These are my thoughts on the next games. Both are very unlikely to happen of course but I think that it would be more than great to implement these on the Pokemon world. This was my personal opinion, what do you think?