In this work, two methods with complementary features, catalytic and molecular beacon (CAMB) and label-free fluorescent sensors using abasic site, have been combined into new label-free CAMB sensors that possess advantages of each method. The label-free method using dSpacer-containing molecular beacon makes CAMB more cost-effective and less interfering to the catalytic activity, while the CAMB allows the label-free method to use true catalytic turnovers for signal amplifications, resulting in a new label-free CAMB sensor for Pb2+ ion, with a detection limit of 3.8 nM while maintaining the same selectivity. Furthermore, by using CAMB to overcome the label-free method’s limitation of the requiring excess enzyme strand, a new label-free CAMB sensor using aptazyme is also designed to detect adenosine down to 1.4 μM, with excellent selectivity over other nucleosides.