SHADO engages in its first battle with the enemy. Sky One cripples an alien ship which crash-lands in a lake. Straker's team capture its pilot, a strange blue-skinned humanoid - and the grim secret behind the aliens' are revealed.

An XV-104 test plane wanders into a UFO target area and the pilot, Paul Foster, makes sightings of both the UFO and Sky One. Angry and frustrated that no one believes his story, Foster suspects a cover-up and decides to conduct his own investigation into the activities of ex-USAF Colonel Ed Straker.

When a Lunar Module is attacked by a UFO, Straker makes a split-second decision that endangers the astronauts, but ultimately saves them. Later, he is surprised to find his authority being questioned by his most loyal officer, Colonel Paul Foster, who spearheads a campaign against him. Then an attempt is made on Straker's life...

Suspecting a UFO to be responsible for the sinking of a freighter, Straker, Foster and Nina Barry investigate in Skydiver. Attacked by an undersea UFO, the submarine is downed on a ledge on the sea bed and the crew are trapped. While Straker fights against his claustrophobia, Nina faces a living nightmare...

"Unfortunately for them, an Alien came through that door instead of her husband." In the woods between Clare Cross and Lingbury, an injured Alien stumbles into a lonely cottage and is shot down by Liz Newton and her lover Cass Fowler. Liz and Cass are taken to SHADO HQ for questioning, but when Liz's husband arrives at the cottage, Paul Foster realises that the Alien's death was no accident!

A UFO imbues three young people with incredible powers. One blows up a radar station, a second steals fingerprints and tries to get aboard a Skydiver sub, blowing it up. The third, a woman, tries to blow up SHADO HQ but the UFO that is feeding her power has now been destroyed.

A SHADO Technician, who is being blackmailed for information by an unknown party, is caught by Freeman, but not before the information is passed. The Technician, Paul Roper, divulges what information he gave to the blackmailers, to SHADO. After much work on the cryptic data, they discover it is part of a plan by the aliens to attack the Moonbase in a way that would be undetectable. Now it's up to Roper to redeem himself, as he is sent on the suicide mission to stop the attack. If he fails, the base will surely be destroyed.

Foster is abducted by aliens from a health spa and is being taken out into space, presumably back to the alien homeworld. However, the UFO was damaged and returns to the moon, crashing there. While the Moonbase personnel try to free Foster of the alien environmental suit, Foster wakes up in the steam room at the health spa. The episode begs explanation for how Foster dreamed in such orderly detail, including Carlin missing a shot and Straker angry at the missed shot, and Dr. Jackson's off-line comments to Straker before they go onto a visual link to Moonbase to guide them through removal of Foster's alien helmet.

Foster is suspected of being a security leak, but during the trial, Straker and gang discover that Foster's apartment was bugged and shut down the disreputable business that is selling the spy gear.

After a pilot is killed when Moonbase operatives fail to give him course change information, the personnel are recalled to Earth for an investigation. A UFO crashes in northern Canada and the personnel are assigned to the operation to find the UFO. Gay Ellis is to coordinate the movement of the mobiles trying to approach the UFO.

A flashback episode in which Straker recalls his marriage, followed by stormy days as he must work covertly to get SHADO up and running and recruit personnel. All this leaves his wife angry at his absence, suspicious at the things he might be doing (her father photographs Straker meeting a woman in a parking garage, a woman who will be working at SHADO). In the end, she gives birth to their son.

Freeman takes over temporarily while Straker deals with a woman apparently determined to investigate what SHADO is all about.