Modulation of Autophagy in Patients With Advanced/Recurrent Non-small Cell Lung Cancer - Phase II

Inclusion Criteria: * Signed a protocol-specific informed consent. * 18 years of age or older. * ECOG Performance Status 0 or 1. Cancer criteria: * Histologically or cytologically confirmed non-small cell lung cancer. Mixed tumors will be categorized by the predominant cell type unless small cell elements are present, in which case the patient is ineligible. Cytologic or histologic elements can be established on metastatic tumor aspirate or biopsy. Sputum cytology alone is not sufficient. * Advanced stage NSCLC (stage IVa ((malignant pleural effusion (is now staged as stage IVa by the most recent staging system), or stage IV, or recurrent disease)). * Measurable disease according to RECIST criteria. * Patient with CNS metastasis are required to have stable disease documented by being off treatment (surgery, or Whole Brain radiation therapy) for at least 2 weeks, and four (4) weeks is preferred. No delay in onset of therapy is required for those patients who undergo stereotactic RT to the brain lesion(s). A contrast enhanced brain CT or brain MRI is required within 35 days of enrollment. Patients with brain metastases who qualify for protocol therapy will be included in Cohort 2 (ineligible for treatment with Bevacizumab). * Prior radiation to sites other than the brain is allowed, if completed at least 2 weeks before treatment and provided that all radiation-related toxicities have resolved to ≤ Grade 1. Stereotactic irradiation to any site excludes the need for a waiting period. Laboratory requirements \- Adequate organ function, as evidenced by ALL the following: * absolute neutrophil count (ANC) ≥ 1500/mm³ * platelet count ≥ 100,000/mm³ * hemoglobin ≥ 9 gm/dL * total bilirubin ≤ 1.5 x ULN; if patient has Gilbert's disease, then patient must have isolated hyperbilirubinemia (e.g. no other liver function test abnormality), with maximum bilirubin ≤ 2 X institutional ULN. * AST and ALT ≤ 2.5 x ULN in the absence of liver metastases; AST and ALT ≤ 5 x ULN in the presence of liver metastases * alkaline phosphatase ≤ 2.5 x ULN * creatinine ≤ 1.5 X institutional ULN or calculated creatinine clearance ≥ 60 ml/min as estimated using the Cockcroft-Gault formula. Comorbidities For Cohort 1: (Bevacizumab eligible) * For patients who have had a major surgical procedure, open biopsy, or significant traumatic injury within 28 days prior to enrollment, or anticipate the need for such while on active treatment, may participate and receive Bevacizumab at the start of the second or third cycle as they would under standard care. Placement of vascular access device is not considered major surgery, but the incision must have healed before initiation of treatment. * Patients must have a systolic blood pressure ≤ 150 mm Hg and diastolic blood pressure ≤ 100 mm Hg (the use of antihypertensive medications to achieve these goals is allowed). * Adequate organ function * INR ≤ 1.5 and aPTT WNL. * Urine Protein Creatinine (UPC) ratio \< 1.0 or 24 hour urine protein ratio \< 1000 mg UPC ratio of spot urine is an estimation of the 24 urine protein excretion. A UPC ratio of 1 is roughly equivalent to a 24-hour urine protein of 1 gm. To obtain a UPC ratio: * Obtain at least 4 mL of a random urine sample * Determine protein and creatinine concentration * Calculate the UPC using one of the following formulae \[urine protein\]/\[urine creatinine\] - if both values are reported in mg/dL \[(urine protein) x 0.088\]/\[urine creatinine\] - if urine creatinine is reported in mmol/L For ALL (Cohort 1 and Cohort 2): * Women must: * Have a negative serum or urine pregnancy test within 7 days prior to study entry if she is a woman of child-bearing potential, OR * Be at least one year post-menopausal, OR * Be surgically sterile * Patients of childbearing or child fathering potential must be willing to use an acceptable method of birth control prior to study entry and for the duration of the study. Acceptable methods of contraception include hormonal, barrier methods, intrauterine device, tubal ligation/vasectomy or abstinence. Exclusion Criteria: Cancer criteria: * No prior cytotoxic chemotherapy or targeted therapy in the advanced or metastatic setting. Post-operative adjuvant therapy for previously resected NSCLC is allowed as long as the last dose was given greater than 1 year before study entry, and there is current evidence of disease progression. * No active malignancy other than NSCLC. Patients with a history of basal cell or squamous cell carcinoma of the skin or carcinoma in situ of the cervix, or ductal or lobular carcinoma in situ of the breast within the past 3 years must have been treated with curative intent. Patients with a history of prior malignancy are eligible provided they were treated with curative intent and have been free of disease for \> 3 years. Comorbidities For Cohort 1: (Bevacizumab eligible) * No history of gross hemoptysis (defined as bright red blood of a half-teaspoon or more) within 3 months prior to enrollment. * None of the following conditions within 6 months prior to enrollment: myocardial infarction, stroke or symptomatic peripheral vascular disease. * No history of abdominal fistula, gastrointestinal perforation, or intra-abdominal abscess within 6 months prior to enrollment. * No serious non-healing wound, ulcer or bone fracture. * Patients must not have unstable angina or NYHA classification of congestive heart failure of Grade ≥ 2. * No history of significant vascular disease (eg aortic aneurysm). * No current or recent (within 28 days of enrollment) full dose anticoagulants or thrombolytic agents. For Cohort 2 (Bevacizumab ineligible): * None of the following conditions within 6 months prior to enrollment: myocardial infarction, stroke or symptomatic peripheral vascular disease. * Patients must not have unstable angina or NYHA classification of congestive heart failure of Grade ≥ 2. * No history of significant vascular disease (eg aortic aneurysm). For ALL (Cohort 1 and Cohort 2): * Patients must not have psoriasis or porphyria. * No known hypersensitivity to 4-aminoquinoline compound. * Patients must not have known or suspected G-6P deficiency. * No know bleeding diathesis or coagulopathy. * No known GI pathology that would interfere with drug bioavailability. * No peripheral or sensory neuropathy \> Grade 1 at study entry. * No known prior hypersensitivity to carboplatin, paclitaxel, bevacizumab or hydroxychloroquine or any of their components. * No ongoing or active infection at study entry. * Patients must not be receiving treatment for rheumatoid arthritis or systemic lupus erythematosus. * Patients must not have HIV or be taking HAART therapy. * Patients must not have a history of any condition (social or medical) that, in the opinion of the Investigator, might interfere with the patient's compliance with the protocol or pose additional or unacceptable risk to the patient. * Women must NOT be pregnant or breastfeeding. * Must not be taking hydroxychloroquine for treatment or prophylaxis of malaria.