clang-format: More custom option fixes for protocol buffer files.

Before:
  repeated double value = 1 [(aaaaaaa.aaaaaaaaa) = {
                               aaaaaaaaaaaaaaaa : AAAAAAAAAA,
                               bbbbbbbbbbbbbbbb : BBBBBBBBBB
                             }];

After:
  repeated double value = 1
      [(aaaaaaa.aaaaaaaaa) = {aaaaaaaaaaaaaaaa : AAAAAAAAAA,
                              bbbbbbbbbbbbbbbb : BBBBBBBBBB}];