Woobie Species

The Woobie is an individual who suffers. This trope is The Woobie on a wider scale, applying to an entire group. In particular, woobieness happens to be a trait of an entire species (alien or otherwise) or fantastic race. The reasons for this can vary. Maybe they are endangered. Maybe they are misunderstood or discriminated against. Whatever the reason, the audience and/or characters in-universe feel sorry for them. As with many tropes of this nature, Your Mileage May Vary.

Anime And Manga

 * The Diclonii from Elfen Lied. Bonus points for the bulk of them going down the Woobie, Destroyer of Worlds road.

Film

 * The Ewoks from Star Wars.
 * The Na'vi from Avatar exist to make us feel sorry for the plight of indigenous peoples.
 * In Titan A.E., humans could be seen as this, as Earth was destroyed by the Drej, making humans galactic drifters.
 * The alien "prawns" from District 9 are another racism-related example combined with What Measure Is a Non-Cute?.

Literature

 * Many aliens in Animorphs apply.
 * The Yeerks are the misunderstood variety...for the most part. They are basically blind, sentient slugs who only take hosts to compensate for their biology. Only those in power and those seeking power can be said to be really evil, as most of them are either swept up in the propaganda or afraid to challenge superiors.
 * The Taxxons suffer from terrible Horror Hunger.
 * The Hork-Bajir were nearly wiped out in an attempt to deprive the Yeerks of hosts.
 * Gedds seem to be inferior to many species in just about every way. And they are the basic Yeerk host.
 * The House elves in Harry Potter.
 * In David Brin's Uplift saga, humans themselves are presented as a Woobie Species. Most aliens despise or hate them as an upstart rogue species that never had a proper upbringing, but even in-universe a few view them as The Woobie.
 * In A. E. Van Vogt's Slan, the titular species, hated and hunted by ordinary humanity, bore a striking resemblance to the smart kids who get picked on at school, the primary demographic of most science fiction of the time.
 * Discworld goblins. Of all the intelligent humanoids on the Disc, Fantastic Racism may hit them the hardest - they face poverty and social marginalization wherever they live, and in many areas aren't legally considered people and can be murdered and enslaved with impunity.
 * Possibly Discworld orcs as well. They're considerably less pathetic than the goblins, but it's not as if they wanted to be bioengineered cannon fodder in someone else's war. The only named orc character is a woobie in his own right.
 * The Nephilim of the Hush, Hush series. Their entire purpose is to be tracked down by fallen angels and be mindraped into spending the rest of their lives in the service of said fallen angels. Said service consists of the fallen angels possessing their bodies for two weeks out of every year, and using them for physical sensations that are usually sex. While the Nephilim are still conscious in their possessed bodies. Also, Word of God states that Nephilim become immortal and frozen at the age they are when they are forced into the service of fallen angels, so they get to look forward to an eternity of this treatment.

Live Action TV

 * The Newcomers from Alien Nation basically exist to teach us An Aesop about racism.

Tabletop Games

 * Prometheans in the New World of Darkness. Depending on your definition of "species", Changelings may also qualify. Life really, really sucks for both of them.
 * Pathfinder has two prominent examples among the core races : halflings and half-orcs. Halflings are often taken advantage of by other larger races, mainly humans, and most of them lack the aggressivity and combativity to fight back oppression, thus halflings have become a Slave Race in half the nations where their population is significant (Cheliax is the most infamous of them in this regard). Half-orcs are almost universally despised, feared by humans and their allies for their appearence and the awful implications of their origin, and looked down upon as weaklings by orcs, and most cannot have a peaceful life as a result, either hiding their nature to everyone or living on the fringes of society.

Video Games

 * The Demi-humans in Chrono Cross are discriminated against and exploited by humans.
 * The Spathi from Ur-Quan Masters. They are pantophobics and are born in such numbers that they receive no attention from their parents. They had a chance to have a protective bubble put around their planet, but due to a mix-up, they are now Reluctant Warriors for an alien dictatorship.
 * Also from Star Control we have the Utwig, who are horribly depressed because they accidentally broke their Ultron, which is the most important MacGuffin (or Magic Feather, Your Mileage May Vary depending on your interpretation) in the history of their society. Of course, there is a quest where you can fix it.
 * The ultimate woobies in the Star Control franchise, of course, are
 * Dragon Age's elves have not had it easy, that's for sure. Their original homeland was invaded by the Tevinter Imperium, and they were enslaved. They were freed after they helped Andraste overthrow the Imperium and established a new homeland. This was invaded by the Chantry (which was founded by Andraste's followers) because they didn't help stop the blight that was going on at that point, and are now either second class citizens living in walled off alienages in the cities, or in the forests, where they try to reclaim their heritage, and even then are often seen as troublemakers.
 * Mass Effect's
 * Also, despite being one of the main enemy species, the geth.
 * Speaking of the quarians, whether you see them as committing unjustifiable genocide on the geth, or simply trying to stop them before they could turn against their masters in a spat of Wrong Genre Savvy, it's hard to deny that their current lives aren't easy. They live on a giant fleet, that has limited resources, and could be crippled by destroying the few liveships they get all their food from, are seen as outcasts and troublemakers by the rest of the galaxy, and must spend all their time in their environmental suits or become very sick and possibly die.
 * The Mudokons in the Oddworld saga. The utter woobieness of the main character as he tries, in his hapless way, to free his fellow woobies from a lifetime of slavery is the main appeal of these games.
 * Gorons and Zoras from The Legend of Zelda: Ocarina of Time. Ganondorf starves the Gorons when their leader refuses to hand over the Goron's ruby, and later . Also, the Zoras.
 * Half-elves in Tales of Symphonia, who are the outcasts of society, rejected by both humans and elves. The fact that the evil organization that's rounding up humans into concentration camps is made up entirely of half-elves certainly doesn't help the race's image, either. It gets to the point that
 * The Dunmer from The Elder Scrolls have a long series of hardships throughout their history, but the absolute worst comes by the time of Skyrim, where their homeland is buried by an erupting volcano and invaded, forcing them to disperse into other lands as refugees...only to be discriminated against and looked down upon by the natives there.
 * The Ancients from Sonic Frontiers, the long-dead precursors whose ruins dot the landscape of the Starfall Islands

Web Original

 * SCP-955 ("Mr. Sillybug") just wants to be your friend, but with a face like that and a startle reflex that involves sparying highly corrosive mucus everywhere, that tends to end poorly.

Western Animation

 * The Beast-Men in Thundercats.

Real Life

 * Endangered species.