No, the section of the BCRA struck down by the Court did not regulate “lobbying money”--whatever you mean by that. I didn’t even see where the Wikipedia article suggested that it did.
Anyway, as noted in the first sentence of the Opinion, the Court struck down the provisions of 2 USC §441b that “prohibit[ed] corporations and unions from using their general treasury funds to make independent expenditures for speech defined as an ‘electioneering communication’ or for speech expressly advocating the election or defeat of a candidate.”
http://www.supremecourt.gov/opinions/09pdf/08-205.pdf
Here is that statute:
http://codes.lp.findlaw.com/uscode/2/14/I/441b
The fact that Congress did not--and, according to precedent, could not--ban lobbying by corporations (and unions) was one of factors that weighed against the shareholder protection rationale that was argued for the constitutionality of the law, as noted by both the majority opinion and Stevens’ dissent: “Even if §441b’s expenditure ban were constitutional,wealthy corporations could still lobby elected officials . . .” At 40.