In the opening two-part episodes “The Return”, a brilliant female scientist named Dr. Lorna Jenkins took DNA samples from Kong’s body and created a clone of him. Dr. Jenkins was able to do this, through researching genetic manipulation, with the implied aid of a collection of ancient, powerful artifacts called the Primal Stones (which are part of the same island home the original Kong came from).
While still small in his infancy, this new Kong was befriended by Dr. Jenkin’s young grandson, Jason, who visited both of them early on in his childhood years.
However, Dr. Jenkins’ research fell under the attention of an ambitious man named Ramon De la Porta; an archeologist who was driven by greed and lack of morals, as well as the need to make himself a success in the scientific world. De La Porta and his men (disguised in a stealth costume) tried to get Dr. Jenkins to share her discoveries with him, but when she refused he later tried to sneak into her lab and steal them. However, he was discovered by Dr. Jenkins and they had a scuffle.
During the struggle, De la Porta had his hand splashed with a chemical that dissolved his right hand. He fled Dr. Jenkins’ lab, but a fire had started, and it burned to the ground.
Dr. Jenkins and Kong both escaped the blaze, but in order to keep Kong safe, she spirited the young ape back to his former home on “Kong Island”, where she sequestered herself for nearly 20 years while she continued to raise and protect Kong, while she continued her research on the Primal Stones. She did keep in touch with her grandson Jason, who she swore to secrecy about her location.
20 years later, Jason Jenkins is attending a seminar at college with his school mate and best friend, Eric “Tann” Tanenbaum, which is being taught by a Professor -- who is actually De la Porta -- who has befriended Jason to some degree. He convinces Jason to take him to see his grandmother, who along with Tann (who provides the aircraft transport) travels with Jason to Kong Island.
Upon arrival on Kong Island, Jason, Tann and De la Porta are confronted by a native girl named Lua, who is the local Shaman and protector of the island. She takes the others and De La Porta to a hidden cavern, where Dr. Jenkins has been continuing her research.
It is there that De La Porta is ‘outed’ by Dr. Jenkins, but not before De la Porta manages to get control of the quartett, after revealing that his right hand is a cybernetic replacement for his original that was dissolved.
He takes one of Dr. Jenkins’ newest inventions called a Cyberlink; a headset that allows for access to the internet, two-way communiaction and an additional effect of being able to merge the wearer with another creature on a genetic level; resulting in the formation of a massive, hybrid creature. When Jason uses the cyberlink to merge with Kong, it is revealed that when Kong gets angrier he grows in both size and power, becoming "Mega-Kong", although the more obvious benefit of the merge is that Kong acquires Jason's knowledge of hand-to-hand combat for use against his adversaries. It also works in reverse, allowing Jason to merge Kong into himself to transport the massive ape more easily.
De La Porta tries to make Dr. Jenkins reveal the location of the Primal Stones, but Kong -- now grown to a massive size -- intervenes and sends De la Porta scrambling for his life. Jason is forced to use the Cyberlink to stop De La Porta, but the evil scientist escapes, with the promise to return one day to take his revenge and capture the Primal Stones for himself.
All the while, Jason, Kong and his friends deal with other larger-than-life threats to the world, and travel the globe to save humanity; a feat made easy, thanks to the Cyberlink’s ability to reverse-merge Kong into Jason’s body, allowing him to carry Kong anywhere they may need him and keep him contained until he is required, although the process can be uncomfortable due to the strong wills of both parties resulting in the occasional conflict for control.
Besides the threat of De la Porta, Jason, Kong, Tann, and Lua had some run-ins with a firearms dealer named Andre. On other occasions, movie director Howling Jack Crocket tries to prove to the world that Kong exists.
The relationships between Jason, Tann, Kong and Lua are the foundation for their success against their foes. Jason treats Kong as a larger brother, signified by him calling Kong "bro", and he and Tann have been best friends for years. Lua, as the island Shaman has befriended Kong as part of her training, and duty to keep the island safe. Both Jason and Lua have some vested feelings for each other -- hinting at a possible romance -- ever since they first met (even though her and Tann did kiss once, while under the influence of two ancient rulers of a pre-Atlantian society).