I made a list, I am sure there are more ways. I left out MJ as it will soon be gone.
Buildcraft:
- Item: Transport Pipes
- Fluid: Fluid Pipes
- Power(RF): Kinesis Pipes
- Redstone: Pipe wire/gates
EnderIO:
- Item: Item Conduit
- Fluid: Fluid Conduit
- Power(RF): Energy Conduit
- Redstone: Redstone Conduit
MFR:
- Item: Conveyer Belt
- Fluid: Plastic Pipe
- Power(RF/EU): Rednet Energy Cable
- Redstone: Rednet Cable
Mekanism:
- Item: Logistical Transporter
- Fluid: Mechanical Pipe
- Power(RF/EU/J): Universal Cable
Tinkers Construct:
- Fluid: faucet/casting channel
Railcraft:
- Items: Chest Cart
- Fluid: Tank Cart
- Power(EU): MFE Cart
- "Redstone": Detector rail
AE2:
- Items: P2P Tunnel - Item
- Fluid: P2P Tunnel - Fluid
- Power(RF/EU): P2P Tunnel - RF/EU
- Redstone: P2P Tunnel - Redstone
Vanilla:
- Items: Hopper/Dropper/Chest Cart
Now if you just have vanilla and Thermal Expansion, you can still transport items/power/fluids around. This is because autonomous activators are just amazingly powerfull. Autonomous activators can use a crescent hammer in anny mode. Comparators can measure how much power is in a energy cell/Portable tank (Empty and/or full!). That redstone signal can then be used to wrench the cell/tank and pick it up with a hopper. Hoppers+droppers can then move to cell to where the fluid/power is needed and another autonomous activator can place it back down again. If needed another autonomous activator can set the input/output using a crescent hammer. To pick a fluid tank back up again you might have to use flowing water to push it of the machine, nothing to difficult though, right?