I just picked this game up over the weekend. Already reached level 96. I'm at the part after making it out of the core where every human faction is now an ally and all are out to beat the zombies back from the rest of the galaxy.
Like others have said, this game is really only hard at certain points. Early on when you don't have much of anything built up it sucks. It is a grind to get blueprints to open up new ship types and mods. Although late game the red mods seem to be handed out like candy if you didn't buy them before going into the core.
I also made it a bit harder on myself early on when I actually tried to keep my relations with everyone on the good side. Found out later that it was worthless to do so. Just kill everyone early on that you can and move along. That is the best way to get blueprints needed as fast as possible. Why buy mods when you can blow up the station that sells them instead and get them for free? If you have long range weapon setup it's simple enough to do since the base only sends out 3 or 4 waves in total to defend itself. Once I did this I never had to worry about resources at all. As long as you don't die you'll not run out of Rez. If you aren't bribing for gate access or faction ups then you won't run out of goons. Once I figured all that out the early game became simple if a bit time consuming of warping around.
I only had ONE really hard fight in the early game. That was against an advanced hammer head. It was setup with a fortress shield, heavy armor, 2x triple turrets with 6 total fusion beam emitters. The other smaller turrets had leech emitters. The last two utility slots were for point defense lasers. Man that thing was NASTY. It was fast enough to catch up to me and while it didn't turn all that quick, it didn't have to with it's weaponry mounted on turrets. It just needed to get in close and pound anything with those fusion beams. While those beams have the shortest range in the game they can literally melt any ship. With 6 of them focusing on a target they could rip through everything in seconds. The only thing I could do was use gravity missiles and bombs to keep the damn thing off me and pound it from a distance as I kited it. Anything else would allow it to close in on one of my ships and blow it up in less than a second. Worst thing was it was a normal gate guard ship in the inner systems worlds. Just a random spawn. I died repeatedly trying to figure out how to beat it. To top it off, the damn thing spawned every time with a bunch of it's own stealth bombers. The stealth bombers accompanying it would slow my ships with a bomb long enough to let that monster close in with my ships.
Had to divide and conquer the small stealth ships from the monster. The first time I did that though, the stupid hammerhead ship went straight for my beacon. Destroyed my beacon in a few seconds. Up until that point I didn't even know the beacon could be destroyed or what would happen. Then I got the message stating that I could get no more reinforcements with the beacon gone. I was like "screw that" and reloaded the game again.
Besides that one encounter I haven't had much difficulty figuring out the game. The zombies were tough initially when I went to fight them because of the damn little zombie monkeys floating around in space that try to latch on to your ships to take them over. The AI controlled ships have a problem handling those things I found out.
Right now this is my current setup I use most of the time.
/// This is the ship I command.
1) Carrier
1x Huge Particle Cannon
1x Huge Leech Emitter
1x Triple Mount with 3x Large Particle Cannons
2x hunter srms
4x large improved missiles
1x large improved drone bay
1x large tractor beam
1x large cannon booster
4x advanced armor
Fortress shield
advanced reactor
advanced engine
As long as I'm firing and hitting a target I have infinite energy to continue doing so. Fairly maneuverable in this config with good speed. The drone take care of pesky floating zombies trying to invade my ship while I deal with other bigger targets.
/// The following is general AI controlled
2) Helix
1x Large Thermal Bomb
1x large launcher booster
1x small cloak boosters
1x medium tractor beam
4x advanced armor
advanced stable cloak
advanced reactor
advanced engine
3) Pounder
1x medium thermal bomb
1x medium tractor
1x medium launcher booster
1x small cloak booster
4x advanced armor
advanced cloak
advanced reactor
advanced engine
4) Ranger
1x launcher booster
1x cloak booster
2x improved missiles
4x advanced armor
advanced cloak
advanced engine
advanced reactor
I went with stealth with my AI controlled ships for a very good reason. AI controlled ships are stupid. Especially when the floating zombie monkeys start chasing them. They tend to spin around in a tight circle constantly all the while trying in vain to shoot the little critters. Which doesn't work and eventually they get invaded and taken over. I got seriously tired of that. While they are messing with those little things they are basically not in the action and making me waste time trying to save them or resourced rebuilding them. It's not like it is hard to clear a ship of those things. Have the ship fly backwards and shoot the damn things.
However, cloaked ships aren't bothered by those little zombie monkeys. So my AI controlled ships stay cloak, and just sit back and deliver bombs on my target constantly. It's fun watching two bombs come speeding out to a clustered wave of enemies and take out all the little guys while softening up the big targets for my command ship to pound at. Also earlier it allowed me to stand off of stations and pound away at them with both my lead ship AND the AI ships. Otherwise the AI ships would always get too close and get blown up. With only bombs or long range missiles to shoot they stay far away and just deliver payload after payload. Much easier to manage the fights that way.
On top of that, since they are cloaked I can just put them in passive and send them off some where on the map to hide if I don't want the AI ships screwing up a mission I'm on. Which happens way too often. Especially stealth based missions. Easier to send the AI ships off to do nothing while I command the only ship I need to complete the mission. A lot of people complained about the stealth missions in this game being impossible to do because of the poor AI. I haven't had a problem yet because of my setup and just using my one command ship to complete the missions.
At this point the game seems almost too easy.