My F2F group seems interested in the
Rise and Fall of HYDRA idea, so I've started thinking about it a bit more. One thing that was immediately apparent is that this game would need to be fairly player pro-active: it's up the heroes to figure out how to defeat HYDRA. One of my players reasonably pointed out that they'd need some information about HYDRA's weak points in order to plot out their plan of attack, which spawned the following info-dump:
HYDRA Overview

HYDRA
is a global defense organization, currently enforcing world-wide
martial law as part of the state of emergency due to the Chitauri
invasion of Siberia. HYDRA took over the assets of the Chitauri-allied
SHIELD organization, and has also globalized several national
militaries. As such, HYDRA has global reach and nearly infinite power,
though much of its strength is focused on the Siberian Gate and the
counter-invasion.

HYDRA is headquartered out of the Triskelion
building in Washington, DC, which is also the maintenance yard and
control center for its semi-automated Helicarriers. A Helicarrier is
always stationed near the Triskelion to protect against traitors; two
other Helicarriers roam the US to provide heavy support against Chitauri
agents. Several other Helicarriers perform a similar duty on other
continents, but the majority of the fleet is engaged in a counter
invasion of Chitauri. For security reasons, HYDRA does not release the
number or operational status of the Helicarriers.
In addition to
the headquarters, HYDRA maintains a large R&D operation in Los
Angelos and a pan-optic surveillance operation based at the former Fort
Meade in Maryland. HYDRA's information specialists operate of
sub-offices in DC, LA, and Chicago.

HYDRA leaves local law
enforcement to local organizations, but HYDRA field commanders can
commandeer any local resource as they need. Initial investigation of
potential traitors is handled by the FBI, but most quislings are
captured by HYDRA's SWAT teams with Tesseract weaponry and Iron Patriot
powered armor support ("Agents of HYDRA" is the most popular show in the
US, now on its 6th season and 3rd movie.) HYDRA super-soldiers deal
with exceptional threats beyond the capability of the SWAT teams, and
there are rumors of exceptionally gifted soldiers (included the fabled
Winter Soldier) who deal with more serious threats. Ultimate enforcement
of martial law and Chitauri defense is provided by the Helicarrier
fleets, their massive and abundant onboard weaponry, and their onboard
aircraft and supersoldier teams. Unofficially, HYDRA also maintains a
substantial secret police organization, modeled on the old German
Gestapo and the East German Stasi.
Threats to HYDRA
AIM and Centipede
are avowed terrorist organizations, allied with the Chitauri, who use
their Extremis and Centipede powered supersoldiers to weaken humanity
from within. There are also informal networks of collaborators and
quislings, who band together to further their efforts of selling out to
the Chitauri. AIM has bases in Europe, especially Switzerland, and
Centipede has world-wide cells but is widely believed to be based out of
Mexico.

The Chitauri, a technologically advanced alien species
from another dimension, is of course the greatest through to world-wide
security. New York City had to be nuked to repel their first invasion,
but HYDRA has risen to the challenge and secured the Siberia Gate and
counter-attacked. Fighting also continues, though at a lesser tempo,
around the Beijing Gate. The Chitauri use micro-gate technology to
insert spies and agents around the globe, forcing HYDRA to divert
resources to hunting out these agents and their human collaborators.
Fortunately, HYDRA's surveillance operation and data mining capabilities
allow them to predict potential threats and deal with them quickly and
decisively.
Certain gifted individuals, such as the Iron Man and
the Hulk, were initial allies of the Chitauri. All of them have been
eliminated by HYDRA, and they are no longer a threat to loyal HYDRA
subjects. Irresponsible rumors regarding sightings of a monstrous green
man are potential treasonous behavior and should be reported to law
enforcement.
Obvious Actions
So if you're a legacy of Captain
America, Iron Man, or the Hulk, or you're just some other super-powered
individual who doesn't want to live under a bunch of brutal,
totalitarian thugs, there are some obvious actions for dealing with
HYDRA:
- Find and recruit allies. The Chitauri are supposed to be
pretty bad, and AIM and Centipede are not angels, but there must be some
kind of resistance that would like to restore freedom.
- Uncover HYDRA's lies. Almost all information about HYDRA is available only from HYDRA's own propaganda operations. Any resistance organization would need to learn the truth, and might find it advantageous to subvert HYDRA's broadcasts to reveal that truth to the world.
- Steal
HYDRA technology. HYDRA researches applications of Tesseract technology
(such as energy weapons and flying suits) at the Hammer Research Center
in LA. Breaking into the center and stealing technology and disrupting
research would be beneficial to any resistance.
- Disrupt HYDRA
surveillance operations. Fort Strucker is supposed to maintain the
largest database and data mining operation in the world, capable of
predicting threats to HYDRA and advising the security forces on how to
deal with them. Destroying or corrupting the database would be
enormously difficult, but would simplify further resistance activities
just as much.
- Deal with the Helicarriers: The Helicarriers, as
flying gun platforms and aircraft carriers, are HYDRA's trump card.
Subverting their control systems, taking them over directly, or
destroying them would be a great blow for any resistance, but would be
the final step in a long campaign of identifying weaknesses,
infiltration, and direct action.
These aren't the only actions for dealing with HYDRA, just some of the most obvious ones.