The main drawbacks of a rack mount rig are the price and the steep learning curve.
Building a rack will cost you a lot more than an amp and a pedalboard. You may weigh up the benefits of the creative freedom you get with a rack and justify the cost, but the entry level price is understandably high for a lot of guitarists.
You'll have to factor in the cost of the rack case, the amp module (potentially split into both preamp and power amp if you want to run the signal into an unpowered guitar speaker), any FX modules/guitar pedals and any additional live equipment like a wireless guitar system or a mixer. If you're building one for the studio, are you going to invest in a powerful rack audio interface or headphone amp?
The next step is getting into the nooks and crannies of what your the rack gear can do – are you willing to put the time in to experiment with the different tones your amp module possesses? Although you can get some great sounding presets, can you adapt to the menu diving and patch-making? And are you willing to buy more modules to expand or upgrade?
Realistically, you have to question whether you would use the full extent of what a rack mount setup could offer. If your answer is “yes” to these questions, then a rack mount rig is the right move.