Learning to use manual is great, but keep in mind that you will get the same photos at F8, ISO 400 and 1/200...mo matter what mode you are in.
If you don't have a good understanding of the three exposure factors; Aperture, Shutters speed and ISO and how they affect exposure, then it may be best to brush up on that or stick to the priority modes for a while.
For example, if you are in manual mode and your photos are 'extremely dark'...it's because you haven't adjusted the settings to get proper exposure. You can't just pick settings randomly, you need to measure the light and adjust your settings to suit that light. Your camera has a built-in light meter, which is how all the auto settings know what to do. You can also use the light meter in manual mode. When you activate the meter (half press the shutter button), you will see a scale appear in the viewfinder (and probably on the LCD screen). In auto modes, the 'needle' will probably default to the middle of the scale (zero) ...2...1...0...-1...-2... So when in manual mode, a good first step would be to get the needle to zero. You can do that by adjusting the shutter speed, aperture or ISO. Keep in mind that the camera is metering on what it 'sees' out the lens...so you should have the camera pointed at your scene while you adjust the settings. Once you get the needle to zero, you can take a photo and you have your 'working exposure'. This may not be exactly correct or exactly what you want...but it's probably close.
So from there, you can adjust any of the three settings to increase or decrease the exposure as you see fit. There are many techniques that will help you to get from 'working exposure' to 'proper exposure'. But maybe that's a lesson to learn after getting the basics down.
If you have a good understanding of the three factors, it will help you to decide which settings to adjust, in order to achieve your creative goal for the shot.