The reason you BOC reaction did not work (in general) is because you need a base (NaHCO3) typically when your amine is hindered or not primary. The N-H is not very nucleophilic and NaHCO3 will not deprotonate your phenolic moeity. You need to understand functionality before running a reaction. Generally the proton that is abstracted from benzimidazole is in the 2 posiiton.
That being said your nitrogen is not nucleophilic. I don't think you need to protect it, but you need to make sure whatever reaction you run for the phenolic group you do not deprotonate the 2 position which is a very stable anion.
Also think about this, if you were to make the BOC protected phenol how stable do you really think it would be, not very.
Lots of chemistry and problems going on with this simple system. Have further questions? Think about it.
Andrew