I don't think you are going to run into any major 'issue or problem' - just choices, that will cause or correct them
Would need to know more about the system(s) you intend to use;
Year it's off of.
Control system you intend to use.
Level of control you intend to facilitate for. (ECM interface with other systems, like trans.)
Level of performance you're intending to achieve.
Amount of work you can do yourself.
Your level of understanding and comfort in working with EFI systems.
Amount of outside help you intend to make use of (programming as needed and etc.)
Amount of work you intend to do to get clearance for the system with the hood. (changes intake air routing and can cause 'issues')
Type of fuel supply system you need, intend to use and what mods you intend for original system.
The above answered/answers will give you a good idea of how planning your project will avoid the normal issues that come up when you take on these type of projects.