When Governor-General Juan Antonio Martinez learned that Fort Santiago was still holding out the rebels, his soldiers were rushed to the fort. Novales himself was caught hiding under Puerta Real by Spanish soldiers. At 5:00 pm of June 2, Novales was killed with his subordinate lieutenant and 21 sergeants by firing squad in a garden near Puerta del Postigo. Andres Novales at his last minute, declared that he and his comrades shall set an example of fighting for freedom. Antonio Novales was supposed to be executed with the rebels, since he was the brother of Andres, however, the people pleaded for his life for he saved the government from being overthrown.
Ang bersiyon naman ni Dr. Pio Valenzuela, isa muling pagsigaw ng mga Katipunero ang ginawa, ito ay “Cry of Pugad Lawin”, ayon sa kaniya ito’y naganap sa bukid ni Juan Ramos Aquino (anak ni Tandang Sora), at hindi sa lugar ni Apolonio Samson, sa Kangkong, hindi sa Balintawak o sa bakuran ni Tandang Sora. Kasalukuyan ito pa rin ay isang kontrobersiyal na ulat sa ating kasaysayan, samantalang ang estado ukol sa kagitingan ng ating: Unang Pangulo, dapat ay National Hero at nagpasimuno ng himagsikan sa ating bansa na pinakauna sa buong Asia, na si Andres Bonifacio ay unti-unting, paliit nang paliit ang pagbigay halaga ng ating bayan at pamahalaan sa kaniyang kabayanihan.