I'm surprised there's this much debate. A lot's been written about this song. A Google search will reveal a number of high-profile interpretations of this song. I've cut and pasted a few.
Johnny Rogan describes it from a biographical standpoint:
"I Just Want To See The Boy Happy" would emerge on his 2006 album Ringleader Of The Tormentors. The seventeen year old Morrissey had come home from school one evening and watched the film "The Boy In The Plastic Bubble". Moved by the film's heart-rending tale of a terminally ill boy, played with melting pathos by John Travolta, Morrissey spent 11 hours in the bathtub composing song lyrics, a fact corroborated by a neighbor, Mrs. Potts-Sacker, who told me she noticed the Morrissey's bathroom light on one evening in 1976. Those song lyrics would eventually become the Ringleader track, although in the intervening years Morrissey would omit several of the original lines, including musings about flying saucers, Colonel Tom Parker, malodorous Congolese, and a prophetic dream sequence involving a tiny mop-headed elf who would one day befriend him, fall in love with him, and break his heart by suddenly returning to his magic cave. The supernatural element in Morrissey's lyrics is a book I will one day write."
And this from
Rolling Stone magazine:
"Ringleader Of The Tormentors features a number of melancholy, eccentric songs from the melancholy, eccentric British singer, Morrissey. The melancholy, eccentric "The Youngest Was The Most Loved" sounds British and mopey, like his ex-band The Smiths. But there are signs of growth, too. "Dear God, Please Help Me" finds melancholy Morrissey eccentrically moping in Rome instead of Britain. Meanwhile, the melancholy "You Have Killed Me" mentions the filmmakers the ex-Smiths singer enjoys watching while moping, often in Britain. Finally, "I Just Want To See The Boy Happy" is a moping eccentric gay British anthem for melancholy students, British people, and ex-Smiths singers. 2 1/2 Stars."
Chuck Klosterman was more enthusiastic in
Spin:
The penultimate track on the album, "I Just Want To See The Boy Happy", features a man who is about to die telling God his final wish. That wish? To see the boy happy. Inherent in this is a deeper question about life. We often ask ourselves, "What does it mean to die?" We rarely ask ourselves, "What does it mean to live?" Living means you are probably not dead, and could also be asking yourself questions. But living could also mean that you are not undead and/or not unborn, two significant categories of active human agency revealed to us by George Romero and "Scanners". I am in my thirties, which means I have been alive for not more than 14,600 days. As I write this, I am sitting on a mechanical bull in a Kansas City club. None of the pseudo-cowboys tossing beers at me has asked themselves "What does it mean to live?" They probably don't even own a Billy Joel album. And it is precisely this ignorance which deftly informs Morrissey's "I Just Want To See The Boy Happy". We don't need to ask these questions. Like a jet-setting gay Alex Trebek, Morrissey has answered it for us.
Finally, Armond White in
Slate:
"I Just Want To See The Boy Happy" is Morrissey in fine form again, the protean verve of his pen creating a chiarascuro effect-- in music-- articulating the Marxist dialectic of late capitalism and pickled herring. Here is Morrissey in all his unsettling power. Ever the provacteur, Morrissey forces a revision of our expectations-- who is this boy, and why his first love? In the Irish Rebellion of 1798, many Irishmen died hoping lives for their sons would be better. Similarly, Morrissey thrusts a fist in the face of his smug English overlords and demands happiness. That such an appeal-- to a Lord, presumably Lord Edward FitzGerald (notice that all the letters in the words "Edward" appear in a cryptic order throughout the song's lyrics)-- must go unfulfilled only adds to the poignancy of Morrissey's courageous howl for justice.
Case closed, I think.